---
_id: '9410'
abstract:
- lang: eng
text: Antibiotic concentrations vary dramatically in the body and the environment.
Hence, understanding the dynamics of resistance evolution along antibiotic concentration
gradients is critical for predicting and slowing the emergence and spread of resistance.
While it has been shown that increasing the concentration of an antibiotic slows
resistance evolution, how adaptation to one antibiotic concentration correlates
with fitness at other points along the gradient has not received much attention.
Here, we selected populations of Escherichia coli at several points along a concentration
gradient for three different antibiotics, asking how rapidly resistance evolved
and whether populations became specialized to the antibiotic concentration they
were selected on. Populations selected at higher concentrations evolved resistance
more slowly but exhibited equal or higher fitness across the whole gradient. Populations
selected at lower concentrations evolved resistance rapidly, but overall fitness
in the presence of antibiotics was lower. However, these populations readily adapted
to higher concentrations upon subsequent selection. Our results indicate that
resistance management strategies must account not only for the rates of resistance
evolution but also for the fitness of evolved strains.
acknowledgement: We would like to thank Martin Ackermann, Camilo Barbosa, Nick Barton,
Jonathan Bollback, Sebastian Bonhoeffer, Nick Colegrave, Calin Guet, Alex Hall,
Sally Otto, Tiago Paixao, Srdjan Sarikas, Hinrich Schulenburg, Marjon de Vos and
Michael Whitlock for insightful support.
article_number: '20200913'
article_processing_charge: No
author:
- first_name: Mato
full_name: Lagator, Mato
id: 345D25EC-F248-11E8-B48F-1D18A9856A87
last_name: Lagator
- first_name: Hildegard
full_name: Uecker, Hildegard
id: 2DB8F68A-F248-11E8-B48F-1D18A9856A87
last_name: Uecker
orcid: 0000-0001-9435-2813
- first_name: Paul
full_name: Neve, Paul
last_name: Neve
citation:
ama: Lagator M, Uecker H, Neve P. Adaptation at different points along antibiotic
concentration gradients. Biology letters. 2021;17(5). doi:10.1098/rsbl.2020.0913
apa: Lagator, M., Uecker, H., & Neve, P. (2021). Adaptation at different points
along antibiotic concentration gradients. Biology Letters. Royal Society
of London. https://doi.org/10.1098/rsbl.2020.0913
chicago: Lagator, Mato, Hildegard Uecker, and Paul Neve. “Adaptation at Different
Points along Antibiotic Concentration Gradients.” Biology Letters. Royal
Society of London, 2021. https://doi.org/10.1098/rsbl.2020.0913.
ieee: M. Lagator, H. Uecker, and P. Neve, “Adaptation at different points along
antibiotic concentration gradients,” Biology letters, vol. 17, no. 5. Royal
Society of London, 2021.
ista: Lagator M, Uecker H, Neve P. 2021. Adaptation at different points along antibiotic
concentration gradients. Biology letters. 17(5), 20200913.
mla: Lagator, Mato, et al. “Adaptation at Different Points along Antibiotic Concentration
Gradients.” Biology Letters, vol. 17, no. 5, 20200913, Royal Society of
London, 2021, doi:10.1098/rsbl.2020.0913.
short: M. Lagator, H. Uecker, P. Neve, Biology Letters 17 (2021).
date_created: 2021-05-23T22:01:43Z
date_published: 2021-05-12T00:00:00Z
date_updated: 2025-05-28T11:42:50Z
day: '12'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1098/rsbl.2020.0913
ec_funded: 1
external_id:
isi:
- '000651501400001'
pmid:
- ' 33975485'
file:
- access_level: open_access
checksum: 9c13c1f5af7609c97c741f11d293188a
content_type: application/pdf
creator: kschuh
date_created: 2021-05-25T14:09:03Z
date_updated: 2021-05-25T14:09:03Z
file_id: '9425'
file_name: 2021_BiologyLetters_Lagator.pdf
file_size: 726759
relation: main_file
success: 1
file_date_updated: 2021-05-25T14:09:03Z
has_accepted_license: '1'
intvolume: ' 17'
isi: 1
issue: '5'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Biology letters
publication_identifier:
eissn:
- 1744957X
publication_status: published
publisher: Royal Society of London
quality_controlled: '1'
scopus_import: '1'
status: public
title: Adaptation at different points along antibiotic concentration gradients
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 17
year: '2021'
...
---
_id: '9470'
abstract:
- lang: eng
text: A key step in understanding the genetic basis of different evolutionary outcomes
(e.g., adaptation) is to determine the roles played by different mutation types
(e.g., SNPs, translocations and inversions). To do this we must simultaneously
consider different mutation types in an evolutionary framework. Here, we propose
a research framework that directly utilizes the most important characteristics
of mutations, their population genetic effects, to determine their relative evolutionary
significance in a given scenario. We review known population genetic effects of
different mutation types and show how these may be connected to different evolutionary
outcomes. We provide examples of how to implement this framework and pinpoint
areas where more data, theory and synthesis are needed. Linking experimental and
theoretical approaches to examine different mutation types simultaneously is a
critical step towards understanding their evolutionary significance.
acknowledgement: We thank the editor, two helpful reviewers, Roger Butlin, Kerstin
Johannesson, Valentina Peona, Rike Stelkens, Julie Blommaert, Nick Barton, and João
Alpedrinha for helpful comments that improved the manuscript. The authors acknowledge
funding from the Swedish Research Council Formas (2017-01597 to AS), the Swedish
Research Council Vetenskapsrådet (2016-05139 to AS, 2019-04452 to TS) and from the
European Research Council (ERC) under the European Union’s Horizon 2020 research
and innovation programme (grant agreement no. 757451 to TS). ELB was funded by a
Carl Tryggers grant awarded to Tanja Slotte. Anja M. Westram was funded by the European
Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie
grant agreement No 797747. Inês Fragata was funded by a Junior Researcher contract
from FCT (CEECIND/02616/2018).
article_processing_charge: No
author:
- first_name: Emma L.
full_name: Berdan, Emma L.
last_name: Berdan
- first_name: Alexandre
full_name: Blanckaert, Alexandre
last_name: Blanckaert
- first_name: Tanja
full_name: Slotte, Tanja
last_name: Slotte
- first_name: Alexander
full_name: Suh, Alexander
last_name: Suh
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: Inês
full_name: Fragata, Inês
last_name: Fragata
citation:
ama: 'Berdan EL, Blanckaert A, Slotte T, Suh A, Westram AM, Fragata I. Unboxing
mutations: Connecting mutation types with evolutionary consequences. Molecular
Ecology. 2021;30(12):2710-2723. doi:10.1111/mec.15936'
apa: 'Berdan, E. L., Blanckaert, A., Slotte, T., Suh, A., Westram, A. M., &
Fragata, I. (2021). Unboxing mutations: Connecting mutation types with evolutionary
consequences. Molecular Ecology. Wiley. https://doi.org/10.1111/mec.15936'
chicago: 'Berdan, Emma L., Alexandre Blanckaert, Tanja Slotte, Alexander Suh, Anja
M Westram, and Inês Fragata. “Unboxing Mutations: Connecting Mutation Types with
Evolutionary Consequences.” Molecular Ecology. Wiley, 2021. https://doi.org/10.1111/mec.15936.'
ieee: 'E. L. Berdan, A. Blanckaert, T. Slotte, A. Suh, A. M. Westram, and I. Fragata,
“Unboxing mutations: Connecting mutation types with evolutionary consequences,”
Molecular Ecology, vol. 30, no. 12. Wiley, pp. 2710–2723, 2021.'
ista: 'Berdan EL, Blanckaert A, Slotte T, Suh A, Westram AM, Fragata I. 2021. Unboxing
mutations: Connecting mutation types with evolutionary consequences. Molecular
Ecology. 30(12), 2710–2723.'
mla: 'Berdan, Emma L., et al. “Unboxing Mutations: Connecting Mutation Types with
Evolutionary Consequences.” Molecular Ecology, vol. 30, no. 12, Wiley,
2021, pp. 2710–23, doi:10.1111/mec.15936.'
short: E.L. Berdan, A. Blanckaert, T. Slotte, A. Suh, A.M. Westram, I. Fragata,
Molecular Ecology 30 (2021) 2710–2723.
date_created: 2021-06-06T22:01:31Z
date_published: 2021-06-01T00:00:00Z
date_updated: 2023-08-08T13:59:18Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/mec.15936
ec_funded: 1
external_id:
isi:
- '000652056400001'
file:
- access_level: open_access
checksum: e6f4731365bde2614b333040a08265d8
content_type: application/pdf
creator: kschuh
date_created: 2021-06-11T15:34:53Z
date_updated: 2021-06-11T15:34:53Z
file_id: '9545'
file_name: 2021_MolecularEcology_Berdan.pdf
file_size: 1031978
relation: main_file
success: 1
file_date_updated: 2021-06-11T15:34:53Z
has_accepted_license: '1'
intvolume: ' 30'
isi: 1
issue: '12'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '06'
oa: 1
oa_version: Published Version
page: 2710-2723
project:
- _id: 265B41B8-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '797747'
name: Theoretical and empirical approaches to understanding Parallel Adaptation
publication: Molecular Ecology
publication_identifier:
eissn:
- 1365294X
issn:
- '09621083'
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Unboxing mutations: Connecting mutation types with evolutionary consequences'
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 30
year: '2021'
...
---
_id: '10535'
abstract:
- lang: eng
text: Realistic models of biological processes typically involve interacting components
on multiple scales, driven by changing environment and inherent stochasticity.
Such models are often analytically and numerically intractable. We revisit a dynamic
maximum entropy method that combines a static maximum entropy with a quasi-stationary
approximation. This allows us to reduce stochastic non-equilibrium dynamics expressed
by the Fokker-Planck equation to a simpler low-dimensional deterministic dynamics,
without the need to track microscopic details. Although the method has been previously
applied to a few (rather complicated) applications in population genetics, our
main goal here is to explain and to better understand how the method works. We
demonstrate the usefulness of the method for two widely studied stochastic problems,
highlighting its accuracy in capturing important macroscopic quantities even in
rapidly changing non-stationary conditions. For the Ornstein-Uhlenbeck process,
the method recovers the exact dynamics whilst for a stochastic island model with
migration from other habitats, the approximation retains high macroscopic accuracy
under a wide range of scenarios in a dynamic environment.
acknowledged_ssus:
- _id: ScienComp
acknowledgement: "Computational resources for the study were provided by the Institute
of Science and Technology, Austria.\r\nKB received funding from the Scientific Grant
Agency of the Slovak Republic under the Grants Nos. 1/0755/19 and 1/0521/20."
article_number: e1009661
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Katarína
full_name: Bod'ová, Katarína
id: 2BA24EA0-F248-11E8-B48F-1D18A9856A87
last_name: Bod'ová
orcid: 0000-0002-7214-0171
- first_name: Eniko
full_name: Szep, Eniko
id: 485BB5A4-F248-11E8-B48F-1D18A9856A87
last_name: Szep
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Bodova K, Szep E, Barton NH. Dynamic maximum entropy provides accurate approximation
of structured population dynamics. PLoS Computational Biology. 2021;17(12).
doi:10.1371/journal.pcbi.1009661
apa: Bodova, K., Szep, E., & Barton, N. H. (2021). Dynamic maximum entropy provides
accurate approximation of structured population dynamics. PLoS Computational
Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1009661
chicago: Bodova, Katarina, Eniko Szep, and Nicholas H Barton. “Dynamic Maximum Entropy
Provides Accurate Approximation of Structured Population Dynamics.” PLoS Computational
Biology. Public Library of Science, 2021. https://doi.org/10.1371/journal.pcbi.1009661.
ieee: K. Bodova, E. Szep, and N. H. Barton, “Dynamic maximum entropy provides accurate
approximation of structured population dynamics,” PLoS Computational Biology,
vol. 17, no. 12. Public Library of Science, 2021.
ista: Bodova K, Szep E, Barton NH. 2021. Dynamic maximum entropy provides accurate
approximation of structured population dynamics. PLoS Computational Biology. 17(12),
e1009661.
mla: Bodova, Katarina, et al. “Dynamic Maximum Entropy Provides Accurate Approximation
of Structured Population Dynamics.” PLoS Computational Biology, vol. 17,
no. 12, e1009661, Public Library of Science, 2021, doi:10.1371/journal.pcbi.1009661.
short: K. Bodova, E. Szep, N.H. Barton, PLoS Computational Biology 17 (2021).
date_created: 2021-12-12T23:01:27Z
date_published: 2021-12-01T00:00:00Z
date_updated: 2022-08-01T10:48:04Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
- _id: GaTk
doi: 10.1371/journal.pcbi.1009661
external_id:
arxiv:
- '2102.03669'
pmid:
- '34851948'
file:
- access_level: open_access
checksum: dcd185d4f7e0acee25edf1d6537f447e
content_type: application/pdf
creator: dernst
date_created: 2022-05-16T08:53:11Z
date_updated: 2022-05-16T08:53:11Z
file_id: '11383'
file_name: 2021_PLOsComBio_Bodova.pdf
file_size: 2299486
relation: main_file
success: 1
file_date_updated: 2022-05-16T08:53:11Z
has_accepted_license: '1'
intvolume: ' 17'
issue: '12'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
publication: PLoS Computational Biology
publication_identifier:
eissn:
- 1553-7358
issn:
- 1553-734X
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Dynamic maximum entropy provides accurate approximation of structured population
dynamics
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 17
year: '2021'
...
---
_id: '12987'
abstract:
- lang: eng
text: Chromosomal inversion polymorphisms, segments of chromosomes that are flipped
in orientation and occur in reversed order in some individuals, have long been
recognized to play an important role in local adaptation. They can reduce recombination
in heterozygous individuals and thus help to maintain sets of locally adapted
alleles. In a wide range of organisms, populations adapted to different habitats
differ in frequency of inversion arrangements. However, getting a full understanding
of the importance of inversions for adaptation requires confirmation of their
influence on traits under divergent selection. Here, we studied a marine snail,
Littorina saxatilis, that has evolved ecotypes adapted to wave exposure or crab
predation. These two types occur in close proximity on different parts of the
shore. Gene flow between them exists in contact zones. However, they exhibit strong
phenotypic divergence in several traits under habitat-specific selection, including
size, shape and behaviour. We used crosses between these ecotypes to identify
genomic regions that explain variation in these traits by using QTL analysis and
variance partitioning across linkage groups. We could show that previously detected
inversion regions contribute to adaptive divergence. Some inversions influenced
multiple traits suggesting that they contain sets of locally adaptive alleles.
Our study also identified regions without known inversions that are important
for phenotypic divergence. Thus, we provide a more complete overview of the importance
of inversions in relation to the remaining genome.
article_processing_charge: No
author:
- first_name: Eva
full_name: Koch, Eva
last_name: Koch
- first_name: Hernán E.
full_name: Morales, Hernán E.
last_name: Morales
- first_name: Jenny
full_name: Larsson, Jenny
last_name: Larsson
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
- first_name: Alan R.
full_name: Lemmon, Alan R.
last_name: Lemmon
- first_name: E. Moriarty
full_name: Lemmon, E. Moriarty
last_name: Lemmon
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
citation:
ama: 'Koch E, Morales HE, Larsson J, et al. Data from: Genetic variation for adaptive
traits is associated with polymorphic inversions in Littorina saxatilis. 2021.
doi:10.5061/DRYAD.ZGMSBCCB4'
apa: 'Koch, E., Morales, H. E., Larsson, J., Westram, A. M., Faria, R., Lemmon,
A. R., … Butlin, R. K. (2021). Data from: Genetic variation for adaptive traits
is associated with polymorphic inversions in Littorina saxatilis. Dryad. https://doi.org/10.5061/DRYAD.ZGMSBCCB4'
chicago: 'Koch, Eva, Hernán E. Morales, Jenny Larsson, Anja M Westram, Rui Faria,
Alan R. Lemmon, E. Moriarty Lemmon, Kerstin Johannesson, and Roger K. Butlin.
“Data from: Genetic Variation for Adaptive Traits Is Associated with Polymorphic
Inversions in Littorina Saxatilis.” Dryad, 2021. https://doi.org/10.5061/DRYAD.ZGMSBCCB4.'
ieee: 'E. Koch et al., “Data from: Genetic variation for adaptive traits
is associated with polymorphic inversions in Littorina saxatilis.” Dryad, 2021.'
ista: 'Koch E, Morales HE, Larsson J, Westram AM, Faria R, Lemmon AR, Lemmon EM,
Johannesson K, Butlin RK. 2021. Data from: Genetic variation for adaptive traits
is associated with polymorphic inversions in Littorina saxatilis, Dryad, 10.5061/DRYAD.ZGMSBCCB4.'
mla: 'Koch, Eva, et al. Data from: Genetic Variation for Adaptive Traits Is Associated
with Polymorphic Inversions in Littorina Saxatilis. Dryad, 2021, doi:10.5061/DRYAD.ZGMSBCCB4.'
short: E. Koch, H.E. Morales, J. Larsson, A.M. Westram, R. Faria, A.R. Lemmon, E.M.
Lemmon, K. Johannesson, R.K. Butlin, (2021).
date_created: 2023-05-16T12:34:09Z
date_published: 2021-04-10T00:00:00Z
date_updated: 2023-08-08T13:34:07Z
day: '10'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.5061/DRYAD.ZGMSBCCB4
has_accepted_license: '1'
license: https://creativecommons.org/publicdomain/zero/1.0/
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.zgmsbccb4
month: '04'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '9394'
relation: used_in_publication
status: public
status: public
title: 'Data from: Genetic variation for adaptive traits is associated with polymorphic
inversions in Littorina saxatilis'
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '9816'
abstract:
- lang: eng
text: "Aims: Mass antigen testing programs have been challenged because of an alleged
insufficient specificity, leading to a large number of false positives. The objective
of this study is to derive a lower bound of the specificity of the SD Biosensor
Standard Q Ag-Test in large scale practical use.\r\nMethods: Based on county data
from the nationwide tests for SARS-CoV-2 in Slovakia between 31.10.–1.11. 2020
we calculate a lower confidence bound for the specificity. As positive test results
were not systematically verified by PCR tests, we base the lower bound on a worst
case assumption, assuming all positives to be false positives.\r\nResults: 3,625,332
persons from 79 counties were tested. The lowest positivity rate was observed
in the county of Rožňava where 100 out of 34307 (0.29%) tests were positive. This
implies a test specificity of at least 99.6% (97.5% one-sided lower confidence
bound, adjusted for multiplicity).\r\nConclusion: The obtained lower bound suggests
a higher specificity compared to earlier studies in spite of the underlying worst
case assumption and the application in a mass testing setting. The actual specificity
is expected to exceed 99.6% if the prevalence in the respective regions was non-negligible
at the time of testing. To our knowledge, this estimate constitutes the first
bound obtained from large scale practical use of an antigen test."
acknowledgement: We would like to thank Alfred Uhl, Richard Kollár and Katarína Bod’ová
for very helpful comments. We also thank Matej Mišík for discussion and information
regarding the Slovak testing data and Ag-Test used.
article_number: e0255267
article_processing_charge: Yes
article_type: original
author:
- first_name: Michal
full_name: Hledik, Michal
id: 4171253A-F248-11E8-B48F-1D18A9856A87
last_name: Hledik
- first_name: Jitka
full_name: Polechova, Jitka
id: 3BBFB084-F248-11E8-B48F-1D18A9856A87
last_name: Polechova
orcid: 0000-0003-0951-3112
- first_name: Mathias
full_name: Beiglböck, Mathias
last_name: Beiglböck
- first_name: Anna Nele
full_name: Herdina, Anna Nele
last_name: Herdina
- first_name: Robert
full_name: Strassl, Robert
last_name: Strassl
- first_name: Martin
full_name: Posch, Martin
last_name: Posch
citation:
ama: Hledik M, Polechova J, Beiglböck M, Herdina AN, Strassl R, Posch M. Analysis
of the specificity of a COVID-19 antigen test in the Slovak mass testing program.
PLoS ONE. 2021;16(7). doi:10.1371/journal.pone.0255267
apa: Hledik, M., Polechova, J., Beiglböck, M., Herdina, A. N., Strassl, R., &
Posch, M. (2021). Analysis of the specificity of a COVID-19 antigen test in the
Slovak mass testing program. PLoS ONE. Public Library of Science. https://doi.org/10.1371/journal.pone.0255267
chicago: Hledik, Michal, Jitka Polechova, Mathias Beiglböck, Anna Nele Herdina,
Robert Strassl, and Martin Posch. “Analysis of the Specificity of a COVID-19 Antigen
Test in the Slovak Mass Testing Program.” PLoS ONE. Public Library of Science,
2021. https://doi.org/10.1371/journal.pone.0255267.
ieee: M. Hledik, J. Polechova, M. Beiglböck, A. N. Herdina, R. Strassl, and M. Posch,
“Analysis of the specificity of a COVID-19 antigen test in the Slovak mass testing
program,” PLoS ONE, vol. 16, no. 7. Public Library of Science, 2021.
ista: Hledik M, Polechova J, Beiglböck M, Herdina AN, Strassl R, Posch M. 2021.
Analysis of the specificity of a COVID-19 antigen test in the Slovak mass testing
program. PLoS ONE. 16(7), e0255267.
mla: Hledik, Michal, et al. “Analysis of the Specificity of a COVID-19 Antigen Test
in the Slovak Mass Testing Program.” PLoS ONE, vol. 16, no. 7, e0255267,
Public Library of Science, 2021, doi:10.1371/journal.pone.0255267.
short: M. Hledik, J. Polechova, M. Beiglböck, A.N. Herdina, R. Strassl, M. Posch,
PLoS ONE 16 (2021).
date_created: 2021-08-08T22:01:26Z
date_published: 2021-07-29T00:00:00Z
date_updated: 2023-08-10T14:26:32Z
day: '29'
ddc:
- '610'
department:
- _id: NiBa
doi: 10.1371/journal.pone.0255267
external_id:
isi:
- '000685248200095'
pmid:
- '34324553'
file:
- access_level: open_access
checksum: ae4df60eb62f4491278588548d0c1f93
content_type: application/pdf
creator: asandaue
date_created: 2021-08-09T11:52:14Z
date_updated: 2021-08-09T11:52:14Z
file_id: '9835'
file_name: 2021_PLoSONE_Hledík.pdf
file_size: 773921
relation: main_file
success: 1
file_date_updated: 2021-08-09T11:52:14Z
has_accepted_license: '1'
intvolume: ' 16'
isi: 1
issue: '7'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
publication: PLoS ONE
publication_identifier:
eissn:
- 1932-6203
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Analysis of the specificity of a COVID-19 antigen test in the Slovak mass testing
program
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 16
year: '2021'
...
---
_id: '7995'
abstract:
- lang: eng
text: When divergent populations are connected by gene flow, the establishment of
complete reproductive isolation usually requires the joint action of multiple
barrier effects. One example where multiple barrier effects are coupled consists
of a single trait that is under divergent natural selection and also mediates
assortative mating. Such multiple‐effect traits can strongly reduce gene flow.
However, there are few cases where patterns of assortative mating have been described
quantitatively and their impact on gene flow has been determined. Two ecotypes
of the coastal marine snail, Littorina saxatilis , occur in North Atlantic rocky‐shore
habitats dominated by either crab predation or wave action. There is evidence
for divergent natural selection acting on size, and size‐assortative mating has
previously been documented. Here, we analyze the mating pattern in L. saxatilis
with respect to size in intensively sampled transects across boundaries between
the habitats. We show that the mating pattern is mostly conserved between ecotypes
and that it generates both assortment and directional sexual selection for small
male size. Using simulations, we show that the mating pattern can contribute to
reproductive isolation between ecotypes but the barrier to gene flow is likely
strengthened more by sexual selection than by assortment.
acknowledgement: We are very grateful to I. Sencic, L. Brettell, A.‐L. Liabot, J.
Galindo, M. Ravinet, and A. Butlin for their help with field sampling and mating
experiments. This work was funded by the Natural Environment Research Council, European
Research Council and Swedish Research Council VR and we are also very grateful for
the support of the Linnaeus Centre for Marine Evolutionary Biology at the University
of Gothenburg. The simulations were performed on resources at Chalmers Centre for
Computational Science and Engineering (C3SE) provided by the Swedish National Infrastructure
for Computing (SNIC). AMW was funded by the European Union's Horizon 2020 research
and innovation program under Marie Skłodowska‐Curie grant agreement no. 797747.
article_processing_charge: No
article_type: original
author:
- first_name: Samuel
full_name: Perini, Samuel
last_name: Perini
- first_name: Marina
full_name: Rafajlović, Marina
last_name: Rafajlović
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
citation:
ama: Perini S, Rafajlović M, Westram AM, Johannesson K, Butlin RK. Assortative mating,
sexual selection, and their consequences for gene flow in Littorina. Evolution.
2020;74(7):1482-1497. doi:10.1111/evo.14027
apa: Perini, S., Rafajlović, M., Westram, A. M., Johannesson, K., & Butlin,
R. K. (2020). Assortative mating, sexual selection, and their consequences for
gene flow in Littorina. Evolution. Wiley. https://doi.org/10.1111/evo.14027
chicago: Perini, Samuel, Marina Rafajlović, Anja M Westram, Kerstin Johannesson,
and Roger K. Butlin. “Assortative Mating, Sexual Selection, and Their Consequences
for Gene Flow in Littorina.” Evolution. Wiley, 2020. https://doi.org/10.1111/evo.14027.
ieee: S. Perini, M. Rafajlović, A. M. Westram, K. Johannesson, and R. K. Butlin,
“Assortative mating, sexual selection, and their consequences for gene flow in
Littorina,” Evolution, vol. 74, no. 7. Wiley, pp. 1482–1497, 2020.
ista: Perini S, Rafajlović M, Westram AM, Johannesson K, Butlin RK. 2020. Assortative
mating, sexual selection, and their consequences for gene flow in Littorina. Evolution.
74(7), 1482–1497.
mla: Perini, Samuel, et al. “Assortative Mating, Sexual Selection, and Their Consequences
for Gene Flow in Littorina.” Evolution, vol. 74, no. 7, Wiley, 2020, pp.
1482–97, doi:10.1111/evo.14027.
short: S. Perini, M. Rafajlović, A.M. Westram, K. Johannesson, R.K. Butlin, Evolution
74 (2020) 1482–1497.
date_created: 2020-06-22T09:14:21Z
date_published: 2020-07-01T00:00:00Z
date_updated: 2023-08-22T07:13:38Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/evo.14027
ec_funded: 1
external_id:
isi:
- '000539780800001'
file:
- access_level: open_access
checksum: 56235bf1e2a9e25f96196bb13b6b754d
content_type: application/pdf
creator: dernst
date_created: 2020-11-25T10:49:48Z
date_updated: 2020-11-25T10:49:48Z
file_id: '8808'
file_name: 2020_Evolution_Perini.pdf
file_size: 1080810
relation: main_file
success: 1
file_date_updated: 2020-11-25T10:49:48Z
has_accepted_license: '1'
intvolume: ' 74'
isi: 1
issue: '7'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 1482-1497
project:
- _id: 265B41B8-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '797747'
name: Theoretical and empirical approaches to understanding Parallel Adaptation
publication: Evolution
publication_identifier:
eissn:
- '15585646'
issn:
- '00143820'
publication_status: published
publisher: Wiley
quality_controlled: '1'
related_material:
record:
- id: '8809'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Assortative mating, sexual selection, and their consequences for gene flow
in Littorina
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 74
year: '2020'
...
---
_id: '8112'
article_number: '20190530'
article_processing_charge: No
article_type: letter_note
author:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: 'Barton NH. On the completion of speciation. Philosophical Transactions
of the Royal Society Series B: Biological Sciences. 2020;375(1806). doi:10.1098/rstb.2019.0530'
apa: 'Barton, N. H. (2020). On the completion of speciation. Philosophical Transactions
of the Royal Society. Series B: Biological Sciences. The Royal Society. https://doi.org/10.1098/rstb.2019.0530'
chicago: 'Barton, Nicholas H. “On the Completion of Speciation.” Philosophical
Transactions of the Royal Society. Series B: Biological Sciences. The Royal
Society, 2020. https://doi.org/10.1098/rstb.2019.0530.'
ieee: 'N. H. Barton, “On the completion of speciation,” Philosophical Transactions
of the Royal Society. Series B: Biological Sciences, vol. 375, no. 1806. The
Royal Society, 2020.'
ista: 'Barton NH. 2020. On the completion of speciation. Philosophical Transactions
of the Royal Society. Series B: Biological Sciences. 375(1806), 20190530.'
mla: 'Barton, Nicholas H. “On the Completion of Speciation.” Philosophical Transactions
of the Royal Society. Series B: Biological Sciences, vol. 375, no. 1806, 20190530,
The Royal Society, 2020, doi:10.1098/rstb.2019.0530.'
short: 'N.H. Barton, Philosophical Transactions of the Royal Society. Series B:
Biological Sciences 375 (2020).'
date_created: 2020-07-13T03:41:39Z
date_published: 2020-07-12T00:00:00Z
date_updated: 2023-08-22T07:53:52Z
day: '12'
department:
- _id: NiBa
doi: 10.1098/rstb.2019.0530
external_id:
isi:
- '000552662100002'
pmid:
- '32654647'
intvolume: ' 375'
isi: 1
issue: '1806'
language:
- iso: eng
month: '07'
oa_version: None
pmid: 1
publication: 'Philosophical Transactions of the Royal Society. Series B: Biological
Sciences'
publication_identifier:
eissn:
- 1471-2970
issn:
- 0962-8436
publication_status: published
publisher: The Royal Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the completion of speciation
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 375
year: '2020'
...
---
_id: '8167'
abstract:
- lang: eng
text: The evolution of strong reproductive isolation (RI) is fundamental to the
origins and maintenance of biological diversity, especially in situations where
geographical distributions of taxa broadly overlap. But what is the history behind
strong barriers currently acting in sympatry? Using whole-genome sequencing and
single nucleotide polymorphism genotyping, we inferred (i) the evolutionary relationships,
(ii) the strength of RI, and (iii) the demographic history of divergence between
two broadly sympatric taxa of intertidal snail. Despite being cryptic, based on
external morphology, Littorina arcana and Littorina saxatilis differ in their
mode of female reproduction (egg-laying versus brooding), which may generate a
strong post-zygotic barrier. We show that egg-laying and brooding snails are closely
related, but genetically distinct. Genotyping of 3092 snails from three locations
failed to recover any recent hybrid or backcrossed individuals, confirming that
RI is strong. There was, however, evidence for a very low level of asymmetrical
introgression, suggesting that isolation remains incomplete. The presence of strong,
asymmetrical RI was further supported by demographic analysis of these populations.
Although the taxa are currently broadly sympatric, demographic modelling suggests
that they initially diverged during a short period of geographical separation
involving very low gene flow. Our study suggests that some geographical separation
may kick-start the evolution of strong RI, facilitating subsequent coexistence
of taxa in sympatry. The strength of RI needed to achieve sympatry and the subsequent
effect of sympatry on RI remain open questions.
acknowledgement: Funding was provided by the Natural Environment Research Council
(NERC) and the European Research Council. We thank Rui Faria, Nicola Nadeau, Martin
Garlovsky and Hernan Morales for advice and/or useful discussion during the project.
Richard Turney, Graciela Sotelo, Jenny Larson, Stéphane Loisel and Meghan Wharton
participated in the collection and processing of samples. Mark Dunning helped with
the development of bioinformatic pipelines. The analysis of genomic data was conducted
on the University of Sheffield High-performance computer, ShARC. Jeffrey Feder and
an anonymous reviewer provided comments that improved the manuscript.
article_number: '20190545'
article_processing_charge: No
article_type: original
author:
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: Zuzanna B.
full_name: Zagrodzka, Zuzanna B.
last_name: Zagrodzka
- first_name: Isobel
full_name: Eyres, Isobel
last_name: Eyres
- first_name: Thomas
full_name: Broquet, Thomas
last_name: Broquet
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
citation:
ama: 'Stankowski S, Westram AM, Zagrodzka ZB, et al. The evolution of strong reproductive
isolation between sympatric intertidal snails. Philosophical Transactions of
the Royal Society Series B: Biological Sciences. 2020;375(1806). doi:10.1098/rstb.2019.0545'
apa: 'Stankowski, S., Westram, A. M., Zagrodzka, Z. B., Eyres, I., Broquet, T.,
Johannesson, K., & Butlin, R. K. (2020). The evolution of strong reproductive
isolation between sympatric intertidal snails. Philosophical Transactions of
the Royal Society. Series B: Biological Sciences. The Royal Society. https://doi.org/10.1098/rstb.2019.0545'
chicago: 'Stankowski, Sean, Anja M Westram, Zuzanna B. Zagrodzka, Isobel Eyres,
Thomas Broquet, Kerstin Johannesson, and Roger K. Butlin. “The Evolution of Strong
Reproductive Isolation between Sympatric Intertidal Snails.” Philosophical
Transactions of the Royal Society. Series B: Biological Sciences. The Royal
Society, 2020. https://doi.org/10.1098/rstb.2019.0545.'
ieee: 'S. Stankowski et al., “The evolution of strong reproductive isolation
between sympatric intertidal snails,” Philosophical Transactions of the Royal
Society. Series B: Biological Sciences, vol. 375, no. 1806. The Royal Society,
2020.'
ista: 'Stankowski S, Westram AM, Zagrodzka ZB, Eyres I, Broquet T, Johannesson K,
Butlin RK. 2020. The evolution of strong reproductive isolation between sympatric
intertidal snails. Philosophical Transactions of the Royal Society. Series B:
Biological Sciences. 375(1806), 20190545.'
mla: 'Stankowski, Sean, et al. “The Evolution of Strong Reproductive Isolation between
Sympatric Intertidal Snails.” Philosophical Transactions of the Royal Society.
Series B: Biological Sciences, vol. 375, no. 1806, 20190545, The Royal Society,
2020, doi:10.1098/rstb.2019.0545.'
short: 'S. Stankowski, A.M. Westram, Z.B. Zagrodzka, I. Eyres, T. Broquet, K. Johannesson,
R.K. Butlin, Philosophical Transactions of the Royal Society. Series B: Biological
Sciences 375 (2020).'
date_created: 2020-07-26T22:01:01Z
date_published: 2020-07-12T00:00:00Z
date_updated: 2023-08-22T08:22:13Z
day: '12'
department:
- _id: NiBa
doi: 10.1098/rstb.2019.0545
external_id:
isi:
- '000552662100014'
pmid:
- '32654639'
intvolume: ' 375'
isi: 1
issue: '1806'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1098/rstb.2019.0545
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
publication: 'Philosophical Transactions of the Royal Society. Series B: Biological
Sciences'
publication_identifier:
eissn:
- 1471-2970
publication_status: published
publisher: The Royal Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: The evolution of strong reproductive isolation between sympatric intertidal
snails
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 375
year: '2020'
...
---
_id: '8168'
abstract:
- lang: eng
text: Speciation, that is, the evolution of reproductive barriers eventually leading
to complete isolation, is a crucial process generating biodiversity. Recent work
has contributed much to our understanding of how reproductive barriers begin to
evolve, and how they are maintained in the face of gene flow. However, little
is known about the transition from partial to strong reproductive isolation (RI)
and the completion of speciation. We argue that the evolution of strong RI is
likely to involve different processes, or new interactions among processes, compared
with the evolution of the first reproductive barriers. Transition to strong RI
may be brought about by changing external conditions, for example, following secondary
contact. However, the increasing levels of RI themselves create opportunities
for new barriers to evolve and, and interaction or coupling among barriers. These
changing processes may depend on genomic architecture and leave detectable signals
in the genome. We outline outstanding questions and suggest more theoretical and
empirical work, considering both patterns and processes associated with strong
RI, is needed to understand how speciation is completed.
article_number: '20190528'
article_processing_charge: No
article_type: original
author:
- first_name: Jonna
full_name: Kulmuni, Jonna
last_name: Kulmuni
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
- first_name: Kay
full_name: Lucek, Kay
last_name: Lucek
- first_name: Vincent
full_name: Savolainen, Vincent
last_name: Savolainen
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
citation:
ama: 'Kulmuni J, Butlin RK, Lucek K, Savolainen V, Westram AM. Towards the completion
of speciation: The evolution of reproductive isolation beyond the first barriers.
Philosophical Transactions of the Royal Society Series B: Biological sciences.
2020;375(1806). doi:10.1098/rstb.2019.0528'
apa: 'Kulmuni, J., Butlin, R. K., Lucek, K., Savolainen, V., & Westram, A. M.
(2020). Towards the completion of speciation: The evolution of reproductive isolation
beyond the first barriers. Philosophical Transactions of the Royal Society.
Series B: Biological Sciences. The Royal Society. https://doi.org/10.1098/rstb.2019.0528'
chicago: 'Kulmuni, Jonna, Roger K. Butlin, Kay Lucek, Vincent Savolainen, and Anja
M Westram. “Towards the Completion of Speciation: The Evolution of Reproductive
Isolation beyond the First Barriers.” Philosophical Transactions of the Royal
Society. Series B: Biological Sciences. The Royal Society, 2020. https://doi.org/10.1098/rstb.2019.0528.'
ieee: 'J. Kulmuni, R. K. Butlin, K. Lucek, V. Savolainen, and A. M. Westram, “Towards
the completion of speciation: The evolution of reproductive isolation beyond the
first barriers,” Philosophical Transactions of the Royal Society. Series B:
Biological sciences, vol. 375, no. 1806. The Royal Society, 2020.'
ista: 'Kulmuni J, Butlin RK, Lucek K, Savolainen V, Westram AM. 2020. Towards the
completion of speciation: The evolution of reproductive isolation beyond the first
barriers. Philosophical Transactions of the Royal Society. Series B: Biological
sciences. 375(1806), 20190528.'
mla: 'Kulmuni, Jonna, et al. “Towards the Completion of Speciation: The Evolution
of Reproductive Isolation beyond the First Barriers.” Philosophical Transactions
of the Royal Society. Series B: Biological Sciences, vol. 375, no. 1806, 20190528,
The Royal Society, 2020, doi:10.1098/rstb.2019.0528.'
short: 'J. Kulmuni, R.K. Butlin, K. Lucek, V. Savolainen, A.M. Westram, Philosophical
Transactions of the Royal Society. Series B: Biological Sciences 375 (2020).'
date_created: 2020-07-26T22:01:01Z
date_published: 2020-07-12T00:00:00Z
date_updated: 2023-08-22T08:21:31Z
day: '12'
department:
- _id: NiBa
doi: 10.1098/rstb.2019.0528
ec_funded: 1
external_id:
isi:
- '000552662100001'
pmid:
- '32654637'
intvolume: ' 375'
isi: 1
issue: '1806'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1098/rstb.2019.0528
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 265B41B8-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '797747'
name: Theoretical and empirical approaches to understanding Parallel Adaptation
publication: 'Philosophical Transactions of the Royal Society. Series B: Biological
sciences'
publication_identifier:
eissn:
- 1471-2970
issn:
- 0962-8436
publication_status: published
publisher: The Royal Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Towards the completion of speciation: The evolution of reproductive isolation
beyond the first barriers'
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 375
year: '2020'
...
---
_id: '8169'
abstract:
- lang: eng
text: Many recent studies have addressed the mechanisms operating during the early
stages of speciation, but surprisingly few studies have tested theoretical predictions
on the evolution of strong reproductive isolation (RI). To help address this gap,
we first undertook a quantitative review of the hybrid zone literature for flowering
plants in relation to reproductive barriers. Then, using Populus as an exemplary
model group, we analysed genome-wide variation for phylogenetic tree topologies
in both early- and late-stage speciation taxa to determine how these patterns
may be related to the genomic architecture of RI. Our plant literature survey
revealed variation in barrier complexity and an association between barrier number
and introgressive gene flow. Focusing on Populus, our genome-wide analysis of
tree topologies in speciating poplar taxa points to unusually complex genomic
architectures of RI, consistent with earlier genome-wide association studies.
These architectures appear to facilitate the ‘escape’ of introgressed genome segments
from polygenic barriers even with strong RI, thus affecting their relationships
with recombination rates. Placed within the context of the broader literature,
our data illustrate how phylogenomic approaches hold great promise for addressing
the evolution and temporary breakdown of RI during late stages of speciation.
acknowledgement: This work was supported by a fellowship from the China Scholarship
Council (CSC) to H.S., Swiss National Science Foundation (SNF) grant no. 31003A_149306
to C.L., doctoral programme grant W1225-B20 to a faculty team including C.L., and
the University of Vienna. We thank members of J.L.’s lab for collecting samples,
Michael Barfuss and Elfi Grasserbauer for help in the laboratory, the Next Generation
Sequencing Platform of the University of Berne for sequencing, the Vienna Scientific
Cluster (VSC) for access to computational resources, and Claus Vogel and members
of the PopGen Vienna graduate school for helpful discussions.
article_number: '20190544'
article_processing_charge: No
article_type: original
author:
- first_name: Huiying
full_name: Shang, Huiying
last_name: Shang
- first_name: Jaqueline
full_name: Hess, Jaqueline
last_name: Hess
- first_name: Melinda
full_name: Pickup, Melinda
id: 2C78037E-F248-11E8-B48F-1D18A9856A87
last_name: Pickup
orcid: 0000-0001-6118-0541
- first_name: David
full_name: Field, David
id: 419049E2-F248-11E8-B48F-1D18A9856A87
last_name: Field
orcid: 0000-0002-4014-8478
- first_name: Pär K.
full_name: Ingvarsson, Pär K.
last_name: Ingvarsson
- first_name: Jianquan
full_name: Liu, Jianquan
last_name: Liu
- first_name: Christian
full_name: Lexer, Christian
last_name: Lexer
citation:
ama: 'Shang H, Hess J, Pickup M, et al. Evolution of strong reproductive isolation
in plants: Broad-scale patterns and lessons from a perennial model group. Philosophical
Transactions of the Royal Society Series B: Biological Sciences. 2020;375(1806).
doi:10.1098/rstb.2019.0544'
apa: 'Shang, H., Hess, J., Pickup, M., Field, D., Ingvarsson, P. K., Liu, J., &
Lexer, C. (2020). Evolution of strong reproductive isolation in plants: Broad-scale
patterns and lessons from a perennial model group. Philosophical Transactions
of the Royal Society. Series B: Biological Sciences. The Royal Society. https://doi.org/10.1098/rstb.2019.0544'
chicago: 'Shang, Huiying, Jaqueline Hess, Melinda Pickup, David Field, Pär K. Ingvarsson,
Jianquan Liu, and Christian Lexer. “Evolution of Strong Reproductive Isolation
in Plants: Broad-Scale Patterns and Lessons from a Perennial Model Group.” Philosophical
Transactions of the Royal Society. Series B: Biological Sciences. The Royal
Society, 2020. https://doi.org/10.1098/rstb.2019.0544.'
ieee: 'H. Shang et al., “Evolution of strong reproductive isolation in plants:
Broad-scale patterns and lessons from a perennial model group,” Philosophical
Transactions of the Royal Society. Series B: Biological Sciences, vol. 375,
no. 1806. The Royal Society, 2020.'
ista: 'Shang H, Hess J, Pickup M, Field D, Ingvarsson PK, Liu J, Lexer C. 2020.
Evolution of strong reproductive isolation in plants: Broad-scale patterns and
lessons from a perennial model group. Philosophical Transactions of the Royal
Society. Series B: Biological Sciences. 375(1806), 20190544.'
mla: 'Shang, Huiying, et al. “Evolution of Strong Reproductive Isolation in Plants:
Broad-Scale Patterns and Lessons from a Perennial Model Group.” Philosophical
Transactions of the Royal Society. Series B: Biological Sciences, vol. 375,
no. 1806, 20190544, The Royal Society, 2020, doi:10.1098/rstb.2019.0544.'
short: 'H. Shang, J. Hess, M. Pickup, D. Field, P.K. Ingvarsson, J. Liu, C. Lexer,
Philosophical Transactions of the Royal Society. Series B: Biological Sciences
375 (2020).'
date_created: 2020-07-26T22:01:02Z
date_published: 2020-07-12T00:00:00Z
date_updated: 2023-08-22T08:23:24Z
day: '12'
department:
- _id: NiBa
doi: 10.1098/rstb.2019.0544
external_id:
isi:
- '000552662100013'
pmid:
- '32654641'
intvolume: ' 375'
isi: 1
issue: '1806'
language:
- iso: eng
month: '07'
oa_version: Published Version
pmid: 1
publication: 'Philosophical Transactions of the Royal Society. Series B: Biological
Sciences'
publication_identifier:
eissn:
- '14712970'
publication_status: published
publisher: The Royal Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Evolution of strong reproductive isolation in plants: Broad-scale patterns
and lessons from a perennial model group'
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 375
year: '2020'
...
---
_id: '8254'
abstract:
- lang: eng
text: "Here are the research data underlying the publication \"Estimating inbreeding
and its effects in a long-term study of snapdragons (Antirrhinum majus)\". Further
information are summed up in the README document.\r\nThe files for this record
have been updated and are now found in the linked DOI https://doi.org/10.15479/AT:ISTA:9192."
article_processing_charge: No
author:
- first_name: Louise S
full_name: Arathoon, Louise S
id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87
last_name: Arathoon
orcid: 0000-0003-1771-714X
citation:
ama: Arathoon LS. Estimating inbreeding and its effects in a long-term study of
snapdragons (Antirrhinum majus). 2020. doi:10.15479/AT:ISTA:8254
apa: Arathoon, L. S. (2020). Estimating inbreeding and its effects in a long-term
study of snapdragons (Antirrhinum majus). Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:8254
chicago: Arathoon, Louise S. “Estimating Inbreeding and Its Effects in a Long-Term
Study of Snapdragons (Antirrhinum Majus).” Institute of Science and Technology
Austria, 2020. https://doi.org/10.15479/AT:ISTA:8254.
ieee: L. S. Arathoon, “Estimating inbreeding and its effects in a long-term study
of snapdragons (Antirrhinum majus).” Institute of Science and Technology Austria,
2020.
ista: Arathoon LS. 2020. Estimating inbreeding and its effects in a long-term study
of snapdragons (Antirrhinum majus), Institute of Science and Technology Austria,
10.15479/AT:ISTA:8254.
mla: Arathoon, Louise S. Estimating Inbreeding and Its Effects in a Long-Term
Study of Snapdragons (Antirrhinum Majus). Institute of Science and Technology
Austria, 2020, doi:10.15479/AT:ISTA:8254.
short: L.S. Arathoon, (2020).
contributor:
- contributor_type: data_collector
first_name: Louise S
id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87
last_name: Arathoon
- contributor_type: project_member
first_name: Parvathy
id: 455235B8-F248-11E8-B48F-1D18A9856A87
last_name: Surendranadh
- contributor_type: project_member
first_name: Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- contributor_type: project_member
first_name: David
id: 419049E2-F248-11E8-B48F-1D18A9856A87
last_name: Field
orcid: 0000-0002-4014-8478
- contributor_type: project_member
first_name: Melinda
id: 2C78037E-F248-11E8-B48F-1D18A9856A87
last_name: Pickup
orcid: 0000-0001-6118-0541
- contributor_type: project_member
first_name: Carina
id: 3B4A7CE2-F248-11E8-B48F-1D18A9856A87
last_name: Baskett
date_created: 2020-08-12T12:49:23Z
date_published: 2020-08-18T00:00:00Z
date_updated: 2024-02-21T12:41:09Z
day: '18'
ddc:
- '576'
department:
- _id: NiBa
doi: 10.15479/AT:ISTA:8254
file:
- access_level: open_access
checksum: 4f1382ed4384751b6013398c11557bf6
content_type: application/x-zip-compressed
creator: dernst
date_created: 2020-08-18T08:03:23Z
date_updated: 2020-08-18T08:03:23Z
file_id: '8280'
file_name: Data_Rcode_MathematicaNB.zip
file_size: 5778420
relation: main_file
success: 1
file_date_updated: 2020-08-18T08:03:23Z
has_accepted_license: '1'
month: '08'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '11321'
relation: later_version
status: public
- id: '9192'
relation: later_version
status: public
status: public
title: Estimating inbreeding and its effects in a long-term study of snapdragons (Antirrhinum
majus)
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '8574'
abstract:
- lang: eng
text: "This thesis concerns itself with the interactions of evolutionary and ecological
forces and the consequences on genetic diversity and the ultimate survival of
populations. It is important to understand what signals processes \r\nleave on
the genome and what we can infer from such data, which is usually abundant but
noisy. Furthermore, understanding how and when populations adapt or go extinct
is important for practical purposes, such as the genetic management of populations,
as well as for theoretical questions, since local adaptation can be the first
step toward speciation. \r\nIn Chapter 2, we introduce the method of maximum entropy
to approximate the demographic changes of a population in a simple setting, namely
the logistic growth model with immigration. We show that this method is not only
a powerful \r\ntool in physics but can be gainfully applied in an ecological framework.
We investigate how well it approximates the real \r\nbehavior of the system, and
find that is does so, even in unexpected situations. Finally, we illustrate how
it can model changing environments.\r\nIn Chapter 3, we analyze the co-evolution
of allele frequencies and population sizes in an infinite island model.\r\nWe
give conditions under which polygenic adaptation to a rare habitat is possible.
The model we use is based on the diffusion approximation, considers eco-evolutionary
feedback mechanisms (hard selection), and treats both \r\ndrift and environmental
fluctuations explicitly. We also look at limiting scenarios, for which we derive
analytical expressions. \r\nIn Chapter 4, we present a coalescent based simulation
tool to obtain patterns of diversity in a spatially explicit subdivided population,
in which the demographic history of each subpopulation can be specified. We compare
\r\nthe results to existing predictions, and explore the relative importance of
time and space under a variety of spatial arrangements and demographic histories,
such as expansion and extinction. \r\nIn the last chapter, we give a brief outlook
to further research. "
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Eniko
full_name: Szep, Eniko
id: 485BB5A4-F248-11E8-B48F-1D18A9856A87
last_name: Szep
citation:
ama: Szep E. Local adaptation in metapopulations. 2020. doi:10.15479/AT:ISTA:8574
apa: Szep, E. (2020). Local adaptation in metapopulations. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:8574
chicago: Szep, Eniko. “Local Adaptation in Metapopulations.” Institute of Science
and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8574.
ieee: E. Szep, “Local adaptation in metapopulations,” Institute of Science and Technology
Austria, 2020.
ista: Szep E. 2020. Local adaptation in metapopulations. Institute of Science and
Technology Austria.
mla: Szep, Eniko. Local Adaptation in Metapopulations. Institute of Science
and Technology Austria, 2020, doi:10.15479/AT:ISTA:8574.
short: E. Szep, Local Adaptation in Metapopulations, Institute of Science and Technology
Austria, 2020.
date_created: 2020-09-28T07:33:38Z
date_published: 2020-09-20T00:00:00Z
date_updated: 2023-09-07T13:11:39Z
day: '20'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: NiBa
doi: 10.15479/AT:ISTA:8574
file:
- access_level: open_access
checksum: 20e71f015fbbd78fea708893ad634ed0
content_type: application/pdf
creator: dernst
date_created: 2020-09-28T07:25:35Z
date_updated: 2020-09-28T07:25:35Z
file_id: '8575'
file_name: thesis_EnikoSzep_final.pdf
file_size: 6354833
relation: main_file
success: 1
- access_level: closed
checksum: a8de2c14a1bb4e53c857787efbb289e1
content_type: application/x-zip-compressed
creator: dernst
date_created: 2020-09-28T07:25:37Z
date_updated: 2020-09-28T07:25:37Z
file_id: '8576'
file_name: thesisFiles_EnikoSzep.zip
file_size: 23020401
relation: source_file
file_date_updated: 2020-09-28T07:25:37Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '158'
publication_identifier:
eissn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
title: Local adaptation in metapopulations
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2020'
...
---
_id: '8809'
abstract:
- lang: eng
text: When divergent populations are connected by gene flow, the establishment of
complete reproductive isolation usually requires the joint action of multiple
barrier effects. One example where multiple barrier effects are coupled consists
of a single trait that is under divergent natural selection and also mediates
assortative mating. Such multiple-effect traits can strongly reduce gene flow.
However, there are few cases where patterns of assortative mating have been described
quantitatively and their impact on gene flow has been determined. Two ecotypes
of the coastal marine snail, Littorina saxatilis, occur in North Atlantic rocky-shore
habitats dominated by either crab predation or wave action. There is evidence
for divergent natural selection acting on size, and size-assortative mating has
previously been documented. Here, we analyze the mating pattern in L. saxatilis
with respect to size in intensively-sampled transects across boundaries between
the habitats. We show that the mating pattern is mostly conserved between ecotypes
and that it generates both assortment and directional sexual selection for small
male size. Using simulations, we show that the mating pattern can contribute to
reproductive isolation between ecotypes but the barrier to gene flow is likely
strengthened more by sexual selection than by assortment.
article_processing_charge: No
author:
- first_name: Samuel
full_name: Perini, Samuel
last_name: Perini
- first_name: Marina
full_name: Rafajlovic, Marina
last_name: Rafajlovic
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Roger
full_name: Butlin, Roger
last_name: Butlin
citation:
ama: 'Perini S, Rafajlovic M, Westram AM, Johannesson K, Butlin R. Data from: Assortative
mating, sexual selection and their consequences for gene flow in Littorina. 2020.
doi:10.5061/dryad.qrfj6q5cn'
apa: 'Perini, S., Rafajlovic, M., Westram, A. M., Johannesson, K., & Butlin,
R. (2020). Data from: Assortative mating, sexual selection and their consequences
for gene flow in Littorina. Dryad. https://doi.org/10.5061/dryad.qrfj6q5cn'
chicago: 'Perini, Samuel, Marina Rafajlovic, Anja M Westram, Kerstin Johannesson,
and Roger Butlin. “Data from: Assortative Mating, Sexual Selection and Their Consequences
for Gene Flow in Littorina.” Dryad, 2020. https://doi.org/10.5061/dryad.qrfj6q5cn.'
ieee: 'S. Perini, M. Rafajlovic, A. M. Westram, K. Johannesson, and R. Butlin, “Data
from: Assortative mating, sexual selection and their consequences for gene flow
in Littorina.” Dryad, 2020.'
ista: 'Perini S, Rafajlovic M, Westram AM, Johannesson K, Butlin R. 2020. Data from:
Assortative mating, sexual selection and their consequences for gene flow in Littorina,
Dryad, 10.5061/dryad.qrfj6q5cn.'
mla: 'Perini, Samuel, et al. Data from: Assortative Mating, Sexual Selection
and Their Consequences for Gene Flow in Littorina. Dryad, 2020, doi:10.5061/dryad.qrfj6q5cn.'
short: S. Perini, M. Rafajlovic, A.M. Westram, K. Johannesson, R. Butlin, (2020).
date_created: 2020-11-25T11:07:25Z
date_published: 2020-07-01T00:00:00Z
date_updated: 2023-08-22T07:13:37Z
day: '01'
department:
- _id: NiBa
doi: 10.5061/dryad.qrfj6q5cn
has_accepted_license: '1'
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.qrfj6q5cn
month: '07'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '7995'
relation: used_in_publication
status: public
status: public
title: 'Data from: Assortative mating, sexual selection and their consequences for
gene flow in Littorina'
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2020'
...
---
_id: '7205'
abstract:
- lang: eng
text: Genetic incompatibilities contribute to reproductive isolation between many
diverging populations, but it is still unclear to what extent they play a role
if divergence happens with gene flow. In contact zones between the "Crab" and
"Wave" ecotypes of the snail Littorina saxatilis, divergent selection forms strong
barriers to gene flow, while the role of post‐zygotic barriers due to selection
against hybrids remains unclear. High embryo abortion rates in this species could
indicate the presence of such barriers. Post‐zygotic barriers might include genetic
incompatibilities (e.g. Dobzhansky–Muller incompatibilities) but also maladaptation,
both expected to be most pronounced in contact zones. In addition, embryo abortion
might reflect physiological stress on females and embryos independent of any genetic
stress. We examined all embryos of >500 females sampled outside and inside contact
zones of three populations in Sweden. Females' clutch size ranged from 0 to 1,011
embryos (mean 130 ± 123), and abortion rates varied between 0% and 100% (mean
12%). We described female genotypes by using a hybrid index based on hundreds
of SNPs differentiated between ecotypes with which we characterized female genotypes.
We also calculated female SNP heterozygosity and inversion karyotype. Clutch size
did not vary with female hybrid index, and abortion rates were only weakly related
to hybrid index in two sites but not at all in a third site. No additional variation
in abortion rate was explained by female SNP heterozygosity, but increased female
inversion heterozygosity added slightly to increased abortion. Our results show
only weak and probably biologically insignificant post‐zygotic barriers contributing
to ecotype divergence, and the high and variable abortion rates were marginally,
if at all, explained by hybrid index of females.
article_processing_charge: No
article_type: original
author:
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Zuzanna
full_name: Zagrodzka, Zuzanna
last_name: Zagrodzka
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
citation:
ama: Johannesson K, Zagrodzka Z, Faria R, Westram AM, Butlin RK. Is embryo abortion
a post-zygotic barrier to gene flow between Littorina ecotypes? Journal of
Evolutionary Biology. 2020;33(3):342-351. doi:10.1111/jeb.13570
apa: Johannesson, K., Zagrodzka, Z., Faria, R., Westram, A. M., & Butlin, R.
K. (2020). Is embryo abortion a post-zygotic barrier to gene flow between Littorina
ecotypes? Journal of Evolutionary Biology. Wiley. https://doi.org/10.1111/jeb.13570
chicago: Johannesson, Kerstin, Zuzanna Zagrodzka, Rui Faria, Anja M Westram, and
Roger K. Butlin. “Is Embryo Abortion a Post-Zygotic Barrier to Gene Flow between
Littorina Ecotypes?” Journal of Evolutionary Biology. Wiley, 2020. https://doi.org/10.1111/jeb.13570.
ieee: K. Johannesson, Z. Zagrodzka, R. Faria, A. M. Westram, and R. K. Butlin, “Is
embryo abortion a post-zygotic barrier to gene flow between Littorina ecotypes?,”
Journal of Evolutionary Biology, vol. 33, no. 3. Wiley, pp. 342–351, 2020.
ista: Johannesson K, Zagrodzka Z, Faria R, Westram AM, Butlin RK. 2020. Is embryo
abortion a post-zygotic barrier to gene flow between Littorina ecotypes? Journal
of Evolutionary Biology. 33(3), 342–351.
mla: Johannesson, Kerstin, et al. “Is Embryo Abortion a Post-Zygotic Barrier to
Gene Flow between Littorina Ecotypes?” Journal of Evolutionary Biology,
vol. 33, no. 3, Wiley, 2020, pp. 342–51, doi:10.1111/jeb.13570.
short: K. Johannesson, Z. Zagrodzka, R. Faria, A.M. Westram, R.K. Butlin, Journal
of Evolutionary Biology 33 (2020) 342–351.
date_created: 2019-12-22T23:00:43Z
date_published: 2020-03-01T00:00:00Z
date_updated: 2023-09-06T14:48:57Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/jeb.13570
external_id:
isi:
- '000500954800001'
pmid:
- '31724256'
file:
- access_level: open_access
checksum: 7534ff0839709c0c5265c12d29432f03
content_type: application/pdf
creator: dernst
date_created: 2020-09-22T09:42:18Z
date_updated: 2020-09-22T09:42:18Z
file_id: '8553'
file_name: 2020_EvolBiology_Johannesson.pdf
file_size: 885611
relation: main_file
success: 1
file_date_updated: 2020-09-22T09:42:18Z
has_accepted_license: '1'
intvolume: ' 33'
isi: 1
issue: '3'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 342-351
pmid: 1
publication: Journal of Evolutionary Biology
publication_identifier:
eissn:
- '14209101'
issn:
- 1010061X
publication_status: published
publisher: Wiley
quality_controlled: '1'
related_material:
record:
- id: '13067'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Is embryo abortion a post-zygotic barrier to gene flow between Littorina ecotypes?
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 33
year: '2020'
...
---
_id: '7236'
abstract:
- lang: eng
text: The biotic interactions hypothesis posits that biotic interactions are more
important drivers of adaptation closer to the equator, evidenced by “stronger”
contemporary interactions (e.g. greater interaction rates) and/or patterns of
trait evolution consistent with a history of stronger interactions. Support for
the hypothesis is mixed, but few studies span tropical and temperate regions while
experimentally controlling for evolutionary history. Here, we integrate field
observations and common garden experiments to quantify the relative importance
of pollination and herbivory in a pair of tropical‐temperate congeneric perennial
herbs. Phytolacca rivinoides and P. americana are pioneer species native to the
Neotropics and the eastern USA, respectively. We compared plant‐pollinator and
plant‐herbivore interactions between three tropical populations of P. rivinoides
from Costa Rica and three temperate populations of P. americana from its northern
range edge in Michigan and Ohio. For some metrics of interaction importance, we
also included three subtropical populations of P. americana from its southern
range edge in Florida. This approach confounds species and region but allows us,
uniquely, to measure complementary proxies of interaction importance across a
tropical‐temperate range in one system. To test the prediction that lower‐latitude
plants are more reliant on insect pollinators, we quantified floral display and
reward, insect visitation rates, and self‐pollination ability (autogamy). To test
the prediction that lower‐latitude plants experience more herbivore pressure,
we quantified herbivory rates, herbivore abundance, and leaf palatability. We
found evidence supporting the biotic interactions hypothesis for most comparisons
between P. rivinoides and north‐temperate P. americana (floral display, insect
visitation, autogamy, herbivory, herbivore abundance, and young‐leaf palatability).
Results for subtropical P. americana populations, however, were typically not
intermediate between P. rivinoides and north‐temperate P. americana, as would
be predicted by a linear latitudinal gradient in interaction importance. Subtropical
young‐leaf palatability was intermediate, but subtropical mature leaves were the
least palatable, and pollination‐related traits did not differ between temperate
and subtropical regions. These nonlinear patterns of interaction importance suggest
future work to relate interaction importance to climatic or biotic thresholds.
In sum, we found that the biotic interactions hypothesis was more consistently
supported at the larger spatial scale of our study.
article_number: e01397
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Carina
full_name: Baskett, Carina
id: 3B4A7CE2-F248-11E8-B48F-1D18A9856A87
last_name: Baskett
orcid: 0000-0002-7354-8574
- first_name: Lucy
full_name: Schroeder, Lucy
last_name: Schroeder
- first_name: Marjorie G.
full_name: Weber, Marjorie G.
last_name: Weber
- first_name: Douglas W.
full_name: Schemske, Douglas W.
last_name: Schemske
citation:
ama: Baskett C, Schroeder L, Weber MG, Schemske DW. Multiple metrics of latitudinal
patterns in insect pollination and herbivory for a tropical‐temperate congener
pair. Ecological Monographs. 2020;90(1). doi:10.1002/ecm.1397
apa: Baskett, C., Schroeder, L., Weber, M. G., & Schemske, D. W. (2020). Multiple
metrics of latitudinal patterns in insect pollination and herbivory for a tropical‐temperate
congener pair. Ecological Monographs. Wiley. https://doi.org/10.1002/ecm.1397
chicago: Baskett, Carina, Lucy Schroeder, Marjorie G. Weber, and Douglas W. Schemske.
“Multiple Metrics of Latitudinal Patterns in Insect Pollination and Herbivory
for a Tropical‐temperate Congener Pair.” Ecological Monographs. Wiley,
2020. https://doi.org/10.1002/ecm.1397.
ieee: C. Baskett, L. Schroeder, M. G. Weber, and D. W. Schemske, “Multiple metrics
of latitudinal patterns in insect pollination and herbivory for a tropical‐temperate
congener pair,” Ecological Monographs, vol. 90, no. 1. Wiley, 2020.
ista: Baskett C, Schroeder L, Weber MG, Schemske DW. 2020. Multiple metrics of latitudinal
patterns in insect pollination and herbivory for a tropical‐temperate congener
pair. Ecological Monographs. 90(1), e01397.
mla: Baskett, Carina, et al. “Multiple Metrics of Latitudinal Patterns in Insect
Pollination and Herbivory for a Tropical‐temperate Congener Pair.” Ecological
Monographs, vol. 90, no. 1, e01397, Wiley, 2020, doi:10.1002/ecm.1397.
short: C. Baskett, L. Schroeder, M.G. Weber, D.W. Schemske, Ecological Monographs
90 (2020).
date_created: 2020-01-07T12:47:07Z
date_published: 2020-02-01T00:00:00Z
date_updated: 2023-09-05T15:43:19Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1002/ecm.1397
ec_funded: 1
external_id:
isi:
- '000508511600001'
file:
- access_level: open_access
checksum: ab8130c6e68101f5a091d05324c36f08
content_type: application/pdf
creator: dernst
date_created: 2020-02-10T08:18:14Z
date_updated: 2020-07-14T12:47:54Z
file_id: '7469'
file_name: 2020_EcologMono_Baskett.pdf
file_size: 537941
relation: main_file
file_date_updated: 2020-07-14T12:47:54Z
has_accepted_license: '1'
intvolume: ' 90'
isi: 1
issue: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Ecological Monographs
publication_identifier:
eissn:
- 1557-7015
issn:
- 0012-9615
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Multiple metrics of latitudinal patterns in insect pollination and herbivory
for a tropical‐temperate congener pair
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 90
year: '2020'
...
---
_id: '7651'
abstract:
- lang: eng
text: The growth of snail shells can be described by simple mathematical rules.
Variation in a few parameters can explain much of the diversity of shell shapes
seen in nature. However, empirical studies of gastropod shell shape variation
typically use geometric morphometric approaches, which do not capture this growth
pattern. We have developed a way to infer a set of developmentally descriptive
shape parameters based on three-dimensional logarithmic helicospiral growth and
using landmarks from two-dimensional shell images as input. We demonstrate the
utility of this approach, and compare it to the geometric morphometric approach,
using a large set of Littorina saxatilis shells in which locally adapted populations
differ in shape. Our method can be modified easily to make it applicable to a
wide range of shell forms, which would allow for investigations of the similarities
and differences between and within many different species of gastropods.
article_number: '20190721'
article_processing_charge: No
article_type: original
author:
- first_name: J.
full_name: Larsson, J.
last_name: Larsson
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: S.
full_name: Bengmark, S.
last_name: Bengmark
- first_name: T.
full_name: Lundh, T.
last_name: Lundh
- first_name: R. K.
full_name: Butlin, R. K.
last_name: Butlin
citation:
ama: Larsson J, Westram AM, Bengmark S, Lundh T, Butlin RK. A developmentally descriptive
method for quantifying shape in gastropod shells. Journal of The Royal Society
Interface. 2020;17(163). doi:10.1098/rsif.2019.0721
apa: Larsson, J., Westram, A. M., Bengmark, S., Lundh, T., & Butlin, R. K. (2020).
A developmentally descriptive method for quantifying shape in gastropod shells.
Journal of The Royal Society Interface. The Royal Society. https://doi.org/10.1098/rsif.2019.0721
chicago: Larsson, J., Anja M Westram, S. Bengmark, T. Lundh, and R. K. Butlin. “A
Developmentally Descriptive Method for Quantifying Shape in Gastropod Shells.”
Journal of The Royal Society Interface. The Royal Society, 2020. https://doi.org/10.1098/rsif.2019.0721.
ieee: J. Larsson, A. M. Westram, S. Bengmark, T. Lundh, and R. K. Butlin, “A developmentally
descriptive method for quantifying shape in gastropod shells,” Journal of The
Royal Society Interface, vol. 17, no. 163. The Royal Society, 2020.
ista: Larsson J, Westram AM, Bengmark S, Lundh T, Butlin RK. 2020. A developmentally
descriptive method for quantifying shape in gastropod shells. Journal of The Royal
Society Interface. 17(163), 20190721.
mla: Larsson, J., et al. “A Developmentally Descriptive Method for Quantifying Shape
in Gastropod Shells.” Journal of The Royal Society Interface, vol. 17,
no. 163, 20190721, The Royal Society, 2020, doi:10.1098/rsif.2019.0721.
short: J. Larsson, A.M. Westram, S. Bengmark, T. Lundh, R.K. Butlin, Journal of
The Royal Society Interface 17 (2020).
date_created: 2020-04-08T15:19:17Z
date_published: 2020-02-01T00:00:00Z
date_updated: 2021-01-12T08:14:41Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1098/rsif.2019.0721
file:
- access_level: open_access
checksum: 4eb102304402f5c56432516b84df86d6
content_type: application/pdf
creator: dernst
date_created: 2020-04-14T12:31:16Z
date_updated: 2020-07-14T12:48:01Z
file_id: '7660'
file_name: 2020_JournRoyalSociety_Larsson.pdf
file_size: 1556190
relation: main_file
file_date_updated: 2020-07-14T12:48:01Z
has_accepted_license: '1'
intvolume: ' 17'
issue: '163'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: Journal of The Royal Society Interface
publication_identifier:
eissn:
- 1742-5662
issn:
- 1742-5689
publication_status: published
publisher: The Royal Society
quality_controlled: '1'
scopus_import: 1
status: public
title: A developmentally descriptive method for quantifying shape in gastropod shells
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 17
year: '2020'
...
---
_id: '13065'
abstract:
- lang: eng
text: Domestication is a human-induced selection process that imprints the genomes
of domesticated populations over a short evolutionary time scale, and that occurs
in a given demographic context. Reconstructing historical gene flow, effective
population size changes and their timing is therefore of fundamental interest
to understand how plant demography and human selection jointly shape genomic divergence
during domestication. Yet, the comparison under a single statistical framework
of independent domestication histories across different crop species has been
little evaluated so far. Thus, it is unclear whether domestication leads to convergent
demographic changes that similarly affect crop genomes. To address this question,
we used existing and new transcriptome data on three crop species of Solanaceae
(eggplant, pepper and tomato), together with their close wild relatives. We fitted
twelve demographic models of increasing complexity on the unfolded joint allele
frequency spectrum for each wild/crop pair, and we found evidence for both shared
and species-specific demographic processes between species. A convergent history
of domestication with gene-flow was inferred for all three species, along with
evidence of strong reduction in the effective population size during the cultivation
stage of tomato and pepper. The absence of any reduction in size of the crop in
eggplant stands out from the classical view of the domestication process; as does
the existence of a “protracted period” of management before cultivation. Our results
also suggest divergent management strategies of modern cultivars among species
as their current demography substantially differs. Finally, the timing of domestication
is species-specific and supported by the few historical records available.
article_processing_charge: No
author:
- first_name: Stephanie
full_name: Arnoux, Stephanie
last_name: Arnoux
- first_name: Christelle
full_name: Fraisse, Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
- first_name: Christopher
full_name: Sauvage, Christopher
last_name: Sauvage
citation:
ama: 'Arnoux S, Fraisse C, Sauvage C. VCF files of synonymous SNPs related to: Genomic
inference of complex domestication histories in three Solanaceae species. 2020.
doi:10.5061/DRYAD.Q2BVQ83HD'
apa: 'Arnoux, S., Fraisse, C., & Sauvage, C. (2020). VCF files of synonymous
SNPs related to: Genomic inference of complex domestication histories in three
Solanaceae species. Dryad. https://doi.org/10.5061/DRYAD.Q2BVQ83HD'
chicago: 'Arnoux, Stephanie, Christelle Fraisse, and Christopher Sauvage. “VCF Files
of Synonymous SNPs Related to: Genomic Inference of Complex Domestication Histories
in Three Solanaceae Species.” Dryad, 2020. https://doi.org/10.5061/DRYAD.Q2BVQ83HD.'
ieee: 'S. Arnoux, C. Fraisse, and C. Sauvage, “VCF files of synonymous SNPs related
to: Genomic inference of complex domestication histories in three Solanaceae species.”
Dryad, 2020.'
ista: 'Arnoux S, Fraisse C, Sauvage C. 2020. VCF files of synonymous SNPs related
to: Genomic inference of complex domestication histories in three Solanaceae species,
Dryad, 10.5061/DRYAD.Q2BVQ83HD.'
mla: 'Arnoux, Stephanie, et al. VCF Files of Synonymous SNPs Related to: Genomic
Inference of Complex Domestication Histories in Three Solanaceae Species.
Dryad, 2020, doi:10.5061/DRYAD.Q2BVQ83HD.'
short: S. Arnoux, C. Fraisse, C. Sauvage, (2020).
date_created: 2023-05-23T16:30:20Z
date_published: 2020-10-19T00:00:00Z
date_updated: 2023-08-04T11:19:26Z
day: '19'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.5061/DRYAD.Q2BVQ83HD
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.q2bvq83hd
month: '10'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
link:
- relation: software
url: https://github.com/starnoux/arnoux_et_al_2019
record:
- id: '8928'
relation: used_in_publication
status: public
status: public
title: 'VCF files of synonymous SNPs related to: Genomic inference of complex domestication
histories in three Solanaceae species'
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '13073'
abstract:
- lang: eng
text: The Mytilus complex of marine mussel species forms a mosaic of hybrid zones,
found across temperate regions of the globe. This allows us to study "replicated"
instances of secondary contact between closely-related species. Previous work
on this complex has shown that local introgression is both widespread and highly
heterogeneous, and has identified SNPs that are outliers of differentiation between
lineages. Here, we developed an ancestry-informative panel of such SNPs. We then
compared their frequencies in newly-sampled populations, including samples from
within the hybrid zones, and parental populations at different distances from
the contact. Results show that close to the hybrid zones, some outlier loci are
near to fixation for the heterospecific allele, suggesting enhanced local introgression,
or the local sweep of a shared ancestral allele. Conversely, genomic cline analyses,
treating local parental populations as the reference, reveal a globally high concordance
among loci, albeit with a few signals of asymmetric introgression. Enhanced local
introgression at specific loci is consistent with the early transfer of adaptive
variants after contact, possibly including asymmetric bi-stable variants (Dobzhansky-Muller
incompatibilities), or haplotypes loaded with fewer deleterious mutations. Having
escaped one barrier, however, these variants can be trapped or delayed at the
next barrier, confining the introgression locally. These results shed light on
the decay of species barriers during phases of contact.
article_processing_charge: No
author:
- first_name: Alexis
full_name: Simon, Alexis
last_name: Simon
- first_name: Christelle
full_name: Fraisse, Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
- first_name: Tahani
full_name: El Ayari, Tahani
last_name: El Ayari
- first_name: Cathy
full_name: Liautard-Haag, Cathy
last_name: Liautard-Haag
- first_name: Petr
full_name: Strelkov, Petr
last_name: Strelkov
- first_name: John
full_name: Welch, John
last_name: Welch
- first_name: Nicolas
full_name: Bierne, Nicolas
last_name: Bierne
citation:
ama: Simon A, Fraisse C, El Ayari T, et al. How do species barriers decay? concordance
and local introgression in mosaic hybrid zones of mussels. 2020. doi:10.5061/DRYAD.R4XGXD29N
apa: Simon, A., Fraisse, C., El Ayari, T., Liautard-Haag, C., Strelkov, P., Welch,
J., & Bierne, N. (2020). How do species barriers decay? concordance and local
introgression in mosaic hybrid zones of mussels. Dryad. https://doi.org/10.5061/DRYAD.R4XGXD29N
chicago: Simon, Alexis, Christelle Fraisse, Tahani El Ayari, Cathy Liautard-Haag,
Petr Strelkov, John Welch, and Nicolas Bierne. “How Do Species Barriers Decay?
Concordance and Local Introgression in Mosaic Hybrid Zones of Mussels.” Dryad,
2020. https://doi.org/10.5061/DRYAD.R4XGXD29N.
ieee: A. Simon et al., “How do species barriers decay? concordance and local
introgression in mosaic hybrid zones of mussels.” Dryad, 2020.
ista: Simon A, Fraisse C, El Ayari T, Liautard-Haag C, Strelkov P, Welch J, Bierne
N. 2020. How do species barriers decay? concordance and local introgression in
mosaic hybrid zones of mussels, Dryad, 10.5061/DRYAD.R4XGXD29N.
mla: Simon, Alexis, et al. How Do Species Barriers Decay? Concordance and Local
Introgression in Mosaic Hybrid Zones of Mussels. Dryad, 2020, doi:10.5061/DRYAD.R4XGXD29N.
short: A. Simon, C. Fraisse, T. El Ayari, C. Liautard-Haag, P. Strelkov, J. Welch,
N. Bierne, (2020).
date_created: 2023-05-23T16:48:27Z
date_published: 2020-09-22T00:00:00Z
date_updated: 2023-08-04T11:04:11Z
day: '22'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.5061/DRYAD.R4XGXD29N
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.r4xgxd29n
month: '09'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '8708'
relation: used_in_publication
status: public
status: public
title: How do species barriers decay? concordance and local introgression in mosaic
hybrid zones of mussels
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '9123'
abstract:
- lang: eng
text: 'Inversions are chromosomal rearrangements where the order of genes is reversed.
Inversions originate by mutation and can be under positive, negative or balancing
selection. Selective effects result from potential disruptive effects on meiosis,
gene disruption at inversion breakpoints and, importantly, the effects of inversions
as modifiers of recombination rate: Recombination is strongly reduced in individuals
heterozygous for an inversion, allowing for alleles at different loci to be inherited
as a ‘block’. This may lead to a selective advantage whenever it is favourable
to keep certain combinations of alleles associated, for example under local adaptation
with gene flow. Inversions can cover a considerable part of a chromosome and contain
numerous loci under different selection pressures, so that the resulting overall
effects may be complex. Empirical data from various systems show that inversions
may have a prominent role in local adaptation, speciation, parallel evolution,
the maintenance of polymorphism and sex chromosome evolution.'
article_processing_charge: No
author:
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
- first_name: Roger
full_name: Butlin, Roger
last_name: Butlin
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
citation:
ama: 'Westram AM, Faria R, Butlin R, Johannesson K. Inversions and Evolution. In:
ELS. Wiley; 2020. doi:10.1002/9780470015902.a0029007'
apa: Westram, A. M., Faria, R., Butlin, R., & Johannesson, K. (2020). Inversions
and Evolution. In eLS. Wiley. https://doi.org/10.1002/9780470015902.a0029007
chicago: Westram, Anja M, Rui Faria, Roger Butlin, and Kerstin Johannesson. “Inversions
and Evolution.” In ELS. Wiley, 2020. https://doi.org/10.1002/9780470015902.a0029007.
ieee: A. M. Westram, R. Faria, R. Butlin, and K. Johannesson, “Inversions and Evolution,”
in eLS, Wiley, 2020.
ista: 'Westram AM, Faria R, Butlin R, Johannesson K. 2020.Inversions and Evolution.
In: eLS. .'
mla: Westram, Anja M., et al. “Inversions and Evolution.” ELS, Wiley, 2020,
doi:10.1002/9780470015902.a0029007.
short: A.M. Westram, R. Faria, R. Butlin, K. Johannesson, in:, ELS, Wiley, 2020.
date_created: 2021-02-15T12:39:04Z
date_published: 2020-05-16T00:00:00Z
date_updated: 2021-02-15T13:18:16Z
day: '16'
department:
- _id: NiBa
doi: 10.1002/9780470015902.a0029007
language:
- iso: eng
month: '05'
oa_version: None
publication: eLS
publication_identifier:
isbn:
- '9780470016176'
- '9780470015902'
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Inversions and Evolution
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '9798'
abstract:
- lang: eng
text: Fitness interactions between mutations can influence a population’s evolution
in many different ways. While epistatic effects are difficult to measure precisely,
important information is captured by the mean and variance of log fitnesses for
individuals carrying different numbers of mutations. We derive predictions for
these quantities from a class of simple fitness landscapes, based on models of
optimizing selection on quantitative traits. We also explore extensions to the
models, including modular pleiotropy, variable effect sizes, mutational bias and
maladaptation of the wild type. We illustrate our approach by reanalysing a large
dataset of mutant effects in a yeast snoRNA. Though characterized by some large
epistatic effects, these data give a good overall fit to the non-epistatic null
model, suggesting that epistasis might have limited influence on the evolutionary
dynamics in this system. We also show how the amount of epistasis depends on both
the underlying fitness landscape and the distribution of mutations, and so is
expected to vary in consistent ways between new mutations, standing variation
and fixed mutations.
article_processing_charge: No
author:
- first_name: Christelle
full_name: Fraisse, Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
- first_name: John J.
full_name: Welch, John J.
last_name: Welch
citation:
ama: Fraisse C, Welch JJ. Simulation code for Fig S2 from the distribution of epistasis
on simple fitness landscapes. 2020. doi:10.6084/m9.figshare.7957472.v1
apa: Fraisse, C., & Welch, J. J. (2020). Simulation code for Fig S2 from the
distribution of epistasis on simple fitness landscapes. Royal Society of London.
https://doi.org/10.6084/m9.figshare.7957472.v1
chicago: Fraisse, Christelle, and John J. Welch. “Simulation Code for Fig S2 from
the Distribution of Epistasis on Simple Fitness Landscapes.” Royal Society of
London, 2020. https://doi.org/10.6084/m9.figshare.7957472.v1.
ieee: C. Fraisse and J. J. Welch, “Simulation code for Fig S2 from the distribution
of epistasis on simple fitness landscapes.” Royal Society of London, 2020.
ista: Fraisse C, Welch JJ. 2020. Simulation code for Fig S2 from the distribution
of epistasis on simple fitness landscapes, Royal Society of London, 10.6084/m9.figshare.7957472.v1.
mla: Fraisse, Christelle, and John J. Welch. Simulation Code for Fig S2 from
the Distribution of Epistasis on Simple Fitness Landscapes. Royal Society
of London, 2020, doi:10.6084/m9.figshare.7957472.v1.
short: C. Fraisse, J.J. Welch, (2020).
date_created: 2021-08-06T11:18:15Z
date_published: 2020-10-15T00:00:00Z
date_updated: 2023-08-25T10:34:41Z
day: '15'
department:
- _id: BeVi
- _id: NiBa
doi: 10.6084/m9.figshare.7957472.v1
main_file_link:
- open_access: '1'
url: https://doi.org/10.6084/m9.figshare.7957472.v1
month: '10'
oa: 1
oa_version: Published Version
publisher: Royal Society of London
related_material:
record:
- id: '6467'
relation: used_in_publication
status: public
status: public
title: Simulation code for Fig S2 from the distribution of epistasis on simple fitness
landscapes
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2020'
...