---
_id: '11479'
abstract:
- lang: eng
text: Understanding population divergence that eventually leads to speciation is
essential for evolutionary biology. High species diversity in the sea was regarded
as a paradox when strict allopatry was considered necessary for most speciation
events because geographical barriers seemed largely absent in the sea, and many
marine species have high dispersal capacities. Combining genome-wide data with
demographic modelling to infer the demographic history of divergence has introduced
new ways to address this classical issue. These models assume an ancestral population
that splits into two subpopulations diverging according to different scenarios
that allow tests for periods of gene flow. Models can also test for heterogeneities
in population sizes and migration rates along the genome to account, respectively,
for background selection and selection against introgressed ancestry. To investigate
how barriers to gene flow arise in the sea, we compiled studies modelling the
demographic history of divergence in marine organisms and extracted preferred
demographic scenarios together with estimates of demographic parameters. These
studies show that geographical barriers to gene flow do exist in the sea but that
divergence can also occur without strict isolation. Heterogeneity of gene flow
was detected in most population pairs suggesting the predominance of semipermeable
barriers during divergence. We found a weak positive relationship between the
fraction of the genome experiencing reduced gene flow and levels of genome-wide
differentiation. Furthermore, we found that the upper bound of the ‘grey zone
of speciation’ for our dataset extended beyond that found before, implying that
gene flow between diverging taxa is possible at higher levels of divergence than
previously thought. Finally, we list recommendations for further strengthening
the use of demographic modelling in speciation research. These include a more
balanced representation of taxa, more consistent and comprehensive modelling,
clear reporting of results and simulation studies to rule out nonbiological explanations
for general results.
acknowledgement: 'We greatly thank all the corresponding authors of the studies that
were included in our synthesis for the sharing of additional data: Thomas Broquet,
Dmitry Filatov, Quentin Rougemont, Paolo Momigliano, Pierre-Alexandre Gagnaire,
Carlos Prada, Ahmed Souissi, Michael Møller Hansen, Sylvie Lapègue, Joseph Di Battista,
Michael Hellberg and Carlos Prada. RKB and ADJ were supported by the European Research
Council. MR was supported by the Swedish Research Council Vetenskapsrådet (grant
number 2021-05243; to MR) and Formas (grant number 2019-00882; to KJ and MR), and
by additional grants from the European Research Council (to RKB) and Vetenskapsrådet
(to KJ) through the Centre for Marine Evolutionary Biology (https://www.gu.se/en/cemeb-marine-evolutionary-biology).'
article_processing_charge: No
article_type: original
author:
- first_name: Aurélien
full_name: De Jode, Aurélien
last_name: De Jode
- first_name: Alan
full_name: Le Moan, Alan
last_name: Le Moan
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
- 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: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
- first_name: Marina
full_name: Rafajlović, Marina
last_name: Rafajlović
- first_name: Christelle
full_name: Fraisse, Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
citation:
ama: De Jode A, Le Moan A, Johannesson K, et al. Ten years of demographic modelling
of divergence and speciation in the sea. Evolutionary Applications. 2023;16(2):542-559.
doi:10.1111/eva.13428
apa: De Jode, A., Le Moan, A., Johannesson, K., Faria, R., Stankowski, S., Westram,
A. M., … Fraisse, C. (2023). Ten years of demographic modelling of divergence
and speciation in the sea. Evolutionary Applications. Wiley. https://doi.org/10.1111/eva.13428
chicago: De Jode, Aurélien, Alan Le Moan, Kerstin Johannesson, Rui Faria, Sean Stankowski,
Anja M Westram, Roger K. Butlin, Marina Rafajlović, and Christelle Fraisse. “Ten
Years of Demographic Modelling of Divergence and Speciation in the Sea.” Evolutionary
Applications. Wiley, 2023. https://doi.org/10.1111/eva.13428.
ieee: A. De Jode et al., “Ten years of demographic modelling of divergence
and speciation in the sea,” Evolutionary Applications, vol. 16, no. 2.
Wiley, pp. 542–559, 2023.
ista: De Jode A, Le Moan A, Johannesson K, Faria R, Stankowski S, Westram AM, Butlin
RK, Rafajlović M, Fraisse C. 2023. Ten years of demographic modelling of divergence
and speciation in the sea. Evolutionary Applications. 16(2), 542–559.
mla: De Jode, Aurélien, et al. “Ten Years of Demographic Modelling of Divergence
and Speciation in the Sea.” Evolutionary Applications, vol. 16, no. 2,
Wiley, 2023, pp. 542–59, doi:10.1111/eva.13428.
short: A. De Jode, A. Le Moan, K. Johannesson, R. Faria, S. Stankowski, A.M. Westram,
R.K. Butlin, M. Rafajlović, C. Fraisse, Evolutionary Applications 16 (2023) 542–559.
date_created: 2022-07-03T22:01:33Z
date_published: 2023-02-01T00:00:00Z
date_updated: 2023-08-01T12:25:44Z
day: '01'
ddc:
- '576'
department:
- _id: NiBa
- _id: BeVi
doi: 10.1111/eva.13428
external_id:
isi:
- '000815663700001'
file:
- access_level: open_access
checksum: d4d6fa9ddf36643af994a6a757919afb
content_type: application/pdf
creator: dernst
date_created: 2023-02-27T07:10:17Z
date_updated: 2023-02-27T07:10:17Z
file_id: '12685'
file_name: 2023_EvolutionaryApplications_DeJode.pdf
file_size: 2269822
relation: main_file
success: 1
file_date_updated: 2023-02-27T07:10:17Z
has_accepted_license: '1'
intvolume: ' 16'
isi: 1
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 542-559
publication: Evolutionary Applications
publication_identifier:
eissn:
- 1752-4571
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Ten years of demographic modelling of divergence and speciation in the sea
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: '2023'
...
---
_id: '14463'
abstract:
- lang: eng
text: Inversions are thought to play a key role in adaptation and speciation, suppressing
recombination between diverging populations. Genes influencing adaptive traits
cluster in inversions, and changes in inversion frequencies are associated with
environmental differences. However, in many organisms, it is unclear if inversions
are geographically and taxonomically widespread. The intertidal snail, Littorina
saxatilis, is one such example. Strong associations between putative polymorphic
inversions and phenotypic differences have been demonstrated between two ecotypes
of L. saxatilis in Sweden and inferred elsewhere, but no direct evidence for inversion
polymorphism currently exists across the species range. Using whole genome data
from 107 snails, most inversion polymorphisms were found to be widespread across
the species range. The frequencies of some inversion arrangements were significantly
different among ecotypes, suggesting a parallel adaptive role. Many inversions
were also polymorphic in the sister species, L. arcana, hinting at an ancient
origin.
acknowledgement: We would like to thank members of the Littorina team for their advice
and feedback during this project. In particular, we thank Alan Le Moan, who inspired
us to look at heterozygosity differences to identify inversions, and Katherine Hearn
for helping with the PCA scripts. We thank Edinburgh Genomics for library preparation
and sequencing. Sample collections, sequencing and data preparation were supported
by the European Research Council (ERC-2015-AdG-693030- BARRIERS) and the Natural
Environment Research Council (NE/P001610/1). The analysis was supported by the Swedish
Research Council (vetenskaprådet; 2018-03695_VR) and the Portuguese Foundation for
Science and Technology (Fundación para a Ciência e Tecnologia) through a research
project (PTDC/BIA-EVL/1614/2021) and CEEC contract (2020.00275.CEECIND).
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: James
full_name: Reeve, James
last_name: Reeve
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
- first_name: Eva L.
full_name: Koch, Eva L.
last_name: Koch
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
citation:
ama: Reeve J, Butlin RK, Koch EL, Stankowski S, Faria R. Chromosomal inversion polymorphisms
are widespread across the species ranges of rough periwinkles (Littorina saxatilis
and L. arcana). Molecular Ecology. 2023. doi:10.1111/mec.17160
apa: Reeve, J., Butlin, R. K., Koch, E. L., Stankowski, S., & Faria, R. (2023).
Chromosomal inversion polymorphisms are widespread across the species ranges of
rough periwinkles (Littorina saxatilis and L. arcana). Molecular Ecology.
Wiley. https://doi.org/10.1111/mec.17160
chicago: Reeve, James, Roger K. Butlin, Eva L. Koch, Sean Stankowski, and Rui Faria.
“Chromosomal Inversion Polymorphisms Are Widespread across the Species Ranges
of Rough Periwinkles (Littorina Saxatilis and L. Arcana).” Molecular Ecology.
Wiley, 2023. https://doi.org/10.1111/mec.17160.
ieee: J. Reeve, R. K. Butlin, E. L. Koch, S. Stankowski, and R. Faria, “Chromosomal
inversion polymorphisms are widespread across the species ranges of rough periwinkles
(Littorina saxatilis and L. arcana),” Molecular Ecology. Wiley, 2023.
ista: Reeve J, Butlin RK, Koch EL, Stankowski S, Faria R. 2023. Chromosomal inversion
polymorphisms are widespread across the species ranges of rough periwinkles (Littorina
saxatilis and L. arcana). Molecular Ecology.
mla: Reeve, James, et al. “Chromosomal Inversion Polymorphisms Are Widespread across
the Species Ranges of Rough Periwinkles (Littorina Saxatilis and L. Arcana).”
Molecular Ecology, Wiley, 2023, doi:10.1111/mec.17160.
short: J. Reeve, R.K. Butlin, E.L. Koch, S. Stankowski, R. Faria, Molecular Ecology
(2023).
date_created: 2023-10-29T23:01:17Z
date_published: 2023-10-16T00:00:00Z
date_updated: 2023-12-13T13:05:27Z
day: '16'
department:
- _id: NiBa
doi: 10.1111/mec.17160
external_id:
isi:
- '001085119000001'
pmid:
- '37843465'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1111/mec.17160
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
publication: Molecular Ecology
publication_identifier:
eissn:
- 1365-294X
issn:
- 0962-1083
publication_status: epub_ahead
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Chromosomal inversion polymorphisms are widespread across the species ranges
of rough periwinkles (Littorina saxatilis and L. arcana)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14787'
abstract:
- lang: eng
text: Understanding the phenotypic and genetic architecture of reproductive isolation
is a long‐standing goal of speciation research. In several systems, large‐effect
loci contributing to barrier phenotypes have been characterized, but such causal
connections are rarely known for more complex genetic architectures. In this study,
we combine “top‐down” and “bottom‐up” approaches with demographic modelling toward
an integrated understanding of speciation across a monkeyflower hybrid zone. Previous
work suggests that pollinator visitation acts as a primary barrier to gene flow
between two divergent red‐ and yellow‐flowered ecotypes ofMimulus
aurantiacus. Several candidate isolating traits and anonymous single
nucleotide polymorphism loci under divergent selection have been identified, but
their genomic positions remain unknown. Here, we report findings from demographic
analyses that indicate this hybrid zone formed by secondary contact, but that
subsequent gene flow was restricted by widespread barrier loci across the genome.
Using a novel, geographic cline‐based genome scan, we demonstrate that candidate
barrier loci are broadly distributed across the genome, rather than mapping to
one or a few “islands of speciation.” Quantitative trait locus (QTL) mapping reveals
that most floral traits are highly polygenic, with little evidence that QTL colocalize,
indicating that most traits are genetically independent. Finally, we find little
evidence that QTL and candidate barrier loci overlap, suggesting that some loci
contribute to other forms of reproductive isolation. Our findings highlight the
challenges of understanding the genetic architecture of reproductive isolation
and reveal that barriers to gene flow other than pollinator isolation may play
an important role in this system.
acknowledgement: We thank Julian Catchen for making modifications to Stacks to aid
this project. Peter L. Ralph, Thomas Nelson, Roger K. Butlin, Anja M. Westram and
Nicholas H. Barton provided advice, stimulating discussion and critical feedback.
The project was supported by National Science Foundation grant DEB-1258199.
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: Madeline A.
full_name: Chase, Madeline A.
last_name: Chase
- first_name: Hanna
full_name: McIntosh, Hanna
last_name: McIntosh
- first_name: Matthew A.
full_name: Streisfeld, Matthew A.
last_name: Streisfeld
citation:
ama: Stankowski S, Chase MA, McIntosh H, Streisfeld MA. Integrating top‐down and
bottom‐up approaches to understand the genetic architecture of speciation across
a monkeyflower hybrid zone. Molecular Ecology. 2023;32(8):2041-2054. doi:10.1111/mec.16849
apa: Stankowski, S., Chase, M. A., McIntosh, H., & Streisfeld, M. A. (2023).
Integrating top‐down and bottom‐up approaches to understand the genetic architecture
of speciation across a monkeyflower hybrid zone. Molecular Ecology. Wiley.
https://doi.org/10.1111/mec.16849
chicago: Stankowski, Sean, Madeline A. Chase, Hanna McIntosh, and Matthew A. Streisfeld.
“Integrating Top‐down and Bottom‐up Approaches to Understand the Genetic Architecture
of Speciation across a Monkeyflower Hybrid Zone.” Molecular Ecology. Wiley,
2023. https://doi.org/10.1111/mec.16849.
ieee: S. Stankowski, M. A. Chase, H. McIntosh, and M. A. Streisfeld, “Integrating
top‐down and bottom‐up approaches to understand the genetic architecture of speciation
across a monkeyflower hybrid zone,” Molecular Ecology, vol. 32, no. 8.
Wiley, pp. 2041–2054, 2023.
ista: Stankowski S, Chase MA, McIntosh H, Streisfeld MA. 2023. Integrating top‐down
and bottom‐up approaches to understand the genetic architecture of speciation
across a monkeyflower hybrid zone. Molecular Ecology. 32(8), 2041–2054.
mla: Stankowski, Sean, et al. “Integrating Top‐down and Bottom‐up Approaches to
Understand the Genetic Architecture of Speciation across a Monkeyflower Hybrid
Zone.” Molecular Ecology, vol. 32, no. 8, Wiley, 2023, pp. 2041–54, doi:10.1111/mec.16849.
short: S. Stankowski, M.A. Chase, H. McIntosh, M.A. Streisfeld, Molecular Ecology
32 (2023) 2041–2054.
date_created: 2024-01-10T10:44:45Z
date_published: 2023-04-01T00:00:00Z
date_updated: 2024-01-16T10:10:00Z
day: '01'
department:
- _id: NiBa
doi: 10.1111/mec.16849
external_id:
isi:
- '000919244600001'
pmid:
- '36651268'
intvolume: ' 32'
isi: 1
issue: '8'
keyword:
- Genetics
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2022.01.28.478139
month: '04'
oa: 1
oa_version: Preprint
page: 2041-2054
pmid: 1
publication: Molecular Ecology
publication_identifier:
eissn:
- 1365-294X
issn:
- 0962-1083
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Integrating top‐down and bottom‐up approaches to understand the genetic architecture
of speciation across a monkeyflower hybrid zone
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 32
year: '2023'
...
---
_id: '14812'
abstract:
- lang: eng
text: This repository contains the code and VCF files needed to conduct the analyses
in our MS. Each folder contains a readMe document explaining the nature of each
file and dataset and the results and analyses that they relate to. The same anlaysis
code (but not VCF files) is also available at https://github.com/seanstankowski/Littorina_reproductive_mode
article_processing_charge: No
author:
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
citation:
ama: 'Stankowski S. Data and code for: The genetic architecture of a recent transition
to live-bearing in marine snails. 2023. doi:10.5281/ZENODO.8318995'
apa: 'Stankowski, S. (2023). Data and code for: The genetic architecture of a recent
transition to live-bearing in marine snails. Zenodo. https://doi.org/10.5281/ZENODO.8318995'
chicago: 'Stankowski, Sean. “Data and Code for: The Genetic Architecture of a Recent
Transition to Live-Bearing in Marine Snails.” Zenodo, 2023. https://doi.org/10.5281/ZENODO.8318995.'
ieee: 'S. Stankowski, “Data and code for: The genetic architecture of a recent transition
to live-bearing in marine snails.” Zenodo, 2023.'
ista: 'Stankowski S. 2023. Data and code for: The genetic architecture of a recent
transition to live-bearing in marine snails, Zenodo, 10.5281/ZENODO.8318995.'
mla: 'Stankowski, Sean. Data and Code for: The Genetic Architecture of a Recent
Transition to Live-Bearing in Marine Snails. Zenodo, 2023, doi:10.5281/ZENODO.8318995.'
short: S. Stankowski, (2023).
contributor:
- first_name: Zusanna
last_name: Zagrodzka
- first_name: Martin
last_name: Garlovsky
- first_name: Arka
id: 6AAB2240-CA9A-11E9-9C1A-D9D1E5697425
last_name: Pal
orcid: 0000-0002-4530-8469
- first_name: Daria
id: 428A94B0-F248-11E8-B48F-1D18A9856A87
last_name: Shipilina
orcid: 0000-0002-1145-9226
- first_name: Diego Fernando
id: ae681a14-dc74-11ea-a0a7-c6ef18161701
last_name: Garcia Castillo
- first_name: Hila
id: d6ab5470-2fb3-11ed-8633-986a9b84edac
last_name: Lifchitz
- first_name: Alan
last_name: Le Moan
- first_name: Erica
last_name: Leder
- first_name: James
last_name: Reeve
- first_name: Kerstin
last_name: Johannesson
- first_name: Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: Roger
last_name: Butlin
date_created: 2024-01-16T10:23:01Z
date_published: 2023-09-05T00:00:00Z
date_updated: 2025-08-12T09:04:30Z
day: '05'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.5281/ZENODO.8318995
has_accepted_license: '1'
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/zenodo.8318995
month: '09'
oa: 1
oa_version: Published Version
publisher: Zenodo
related_material:
record:
- id: '14796'
relation: used_in_publication
status: for_moderation
status: public
title: 'Data and code for: The genetic architecture of a recent transition to live-bearing
in marine snails'
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_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14833'
abstract:
- lang: eng
text: Understanding the factors that have shaped the current distributions and diversity
of species is a central and longstanding aim of evolutionary biology. The recent
inclusion of genomic data into phylogeographic studies has dramatically improved
our understanding in organisms where evolutionary relationships have been challenging
to infer. We used whole-genome sequences to study the phylogeography of the intertidal
snail Littorina saxatilis, which has successfully colonized and diversified across
a broad range of coastal environments in the Northern Hemisphere amid repeated
cycles of glaciation. Building on past studies based on short DNA sequences, we
used genome-wide data to provide a clearer picture of the relationships among
samples spanning most of the species natural range. Our results confirm the trans-Atlantic
colonization of North America from Europe, and have allowed us to identify rough
locations of glacial refugia and to infer likely routes of colonization within
Europe. We also investigated the signals in different datasets to account for
the effects of genomic architecture and non-neutral evolution, which provides
new insights about diversification of four ecotypes of L. saxatilis (the crab,
wave, barnacle, and brackish ecotypes) at different spatial scales. Overall, we
provide a much clearer picture of the biogeography of L. saxatilis, providing
a foundation for more detailed phylogenomic and demographic studies.
acknowledgement: Isobel Eyres, Richard Turney, Graciela Sotelo, Jenny Larson, and
Stéphane Loisel helped with the collection and processing of samples. Petri Kemppainen
kindly provided samples from Trondheim Fjord. Mark Dunning helped with the development
of bioinformatic pipelines. The analysis of genomic data was conducted on the University
of Sheffield high-performance computing cluster, ShARC. Funding was provided by
the Natural Environment Research Council (NERC) and the European Research Council
(ERC). J.G. was funded by a Juntas Industriales y Navales (JIN) project (Ministerio
de Ciencia, Innovación y Universidades, code RTI2018-101274-J-I00).
article_number: kzad002
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Zuzanna B
full_name: Zagrodzka, Zuzanna B
last_name: Zagrodzka
- first_name: Juan
full_name: Galindo, Juan
last_name: Galindo
- first_name: Mauricio
full_name: Montaño-Rendón, Mauricio
last_name: Montaño-Rendón
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
- first_name: Natalia
full_name: Mikhailova, Natalia
last_name: Mikhailova
- first_name: April M H
full_name: Blakeslee, April M H
last_name: Blakeslee
- first_name: Einar
full_name: Arnason, Einar
last_name: Arnason
- first_name: Thomas
full_name: Broquet, Thomas
last_name: Broquet
- first_name: Hernán E
full_name: Morales, Hernán E
last_name: Morales
- first_name: John W
full_name: Grahame, John W
last_name: Grahame
- 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: Stankowski S, Zagrodzka ZB, Galindo J, et al. Whole-genome phylogeography of
the intertidal snail Littorina saxatilis. Evolutionary Journal of the Linnean
Society. 2023;2(1). doi:10.1093/evolinnean/kzad002
apa: Stankowski, S., Zagrodzka, Z. B., Galindo, J., Montaño-Rendón, M., Faria, R.,
Mikhailova, N., … Butlin, R. K. (2023). Whole-genome phylogeography of the intertidal
snail Littorina saxatilis. Evolutionary Journal of the Linnean Society.
Oxford University Press. https://doi.org/10.1093/evolinnean/kzad002
chicago: Stankowski, Sean, Zuzanna B Zagrodzka, Juan Galindo, Mauricio Montaño-Rendón,
Rui Faria, Natalia Mikhailova, April M H Blakeslee, et al. “Whole-Genome Phylogeography
of the Intertidal Snail Littorina Saxatilis.” Evolutionary Journal of the Linnean
Society. Oxford University Press, 2023. https://doi.org/10.1093/evolinnean/kzad002.
ieee: S. Stankowski et al., “Whole-genome phylogeography of the intertidal
snail Littorina saxatilis,” Evolutionary Journal of the Linnean Society,
vol. 2, no. 1. Oxford University Press, 2023.
ista: Stankowski S, Zagrodzka ZB, Galindo J, Montaño-Rendón M, Faria R, Mikhailova
N, Blakeslee AMH, Arnason E, Broquet T, Morales HE, Grahame JW, Westram AM, Johannesson
K, Butlin RK. 2023. Whole-genome phylogeography of the intertidal snail Littorina
saxatilis. Evolutionary Journal of the Linnean Society. 2(1), kzad002.
mla: Stankowski, Sean, et al. “Whole-Genome Phylogeography of the Intertidal Snail
Littorina Saxatilis.” Evolutionary Journal of the Linnean Society, vol.
2, no. 1, kzad002, Oxford University Press, 2023, doi:10.1093/evolinnean/kzad002.
short: S. Stankowski, Z.B. Zagrodzka, J. Galindo, M. Montaño-Rendón, R. Faria, N.
Mikhailova, A.M.H. Blakeslee, E. Arnason, T. Broquet, H.E. Morales, J.W. Grahame,
A.M. Westram, K. Johannesson, R.K. Butlin, Evolutionary Journal of the Linnean
Society 2 (2023).
date_created: 2024-01-18T07:54:10Z
date_published: 2023-08-17T00:00:00Z
date_updated: 2024-01-23T08:13:43Z
day: '17'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1093/evolinnean/kzad002
file:
- access_level: open_access
checksum: ba6f9102d3a9fe6631c4fa398c5e4313
content_type: application/pdf
creator: dernst
date_created: 2024-01-23T08:10:00Z
date_updated: 2024-01-23T08:10:00Z
file_id: '14875'
file_name: 2023_EvolJourLinneanSociety_Stankowski.pdf
file_size: 3408944
relation: main_file
success: 1
file_date_updated: 2024-01-23T08:10:00Z
has_accepted_license: '1'
intvolume: ' 2'
issue: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '08'
oa: 1
oa_version: Published Version
publication: Evolutionary Journal of the Linnean Society
publication_identifier:
eissn:
- 2752-938X
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
status: public
title: Whole-genome phylogeography of the intertidal snail Littorina saxatilis
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: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2023'
...
---
_id: '12159'
abstract:
- lang: eng
text: The term “haplotype block” is commonly used in the developing field of haplotype-based
inference methods. We argue that the term should be defined based on the structure
of the Ancestral Recombination Graph (ARG), which contains complete information
on the ancestry of a sample. We use simulated examples to demonstrate key features
of the relationship between haplotype blocks and ancestral structure, emphasizing
the stochasticity of the processes that generate them. Even the simplest cases
of neutrality or of a “hard” selective sweep produce a rich structure, often missed
by commonly used statistics. We highlight a number of novel methods for inferring
haplotype structure, based on the full ARG, or on a sequence of trees, and illustrate
how they can be used to define haplotype blocks using an empirical data set. While
the advent of new, computationally efficient methods makes it possible to apply
these concepts broadly, they (and additional new methods) could benefit from adding
features to explore haplotype blocks, as we define them. Understanding and applying
the concept of the haplotype block will be essential to fully exploit long and
linked-read sequencing technologies.
acknowledgement: 'We thank the Barton group for useful discussion and feedback during
the writing of this article. Comments from Roger Butlin, Molly Schumer''s Group,
the tskit development team, editors and three reviewers greatly improved the manuscript.
Funding was provided by SCAS (Natural Sciences Programme, Knut and Alice Wallenberg
Foundation), an FWF Wittgenstein grant (PT1001Z211), an FWF standalone grant (grant
P 32166), and an ERC Advanced Grant. YFC was supported by the Max Planck Society
and an ERC Proof of Concept Grant #101069216 (HAPLOTAGGING).'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Daria
full_name: Shipilina, Daria
id: 428A94B0-F248-11E8-B48F-1D18A9856A87
last_name: Shipilina
orcid: 0000-0002-1145-9226
- first_name: Arka
full_name: Pal, Arka
id: 6AAB2240-CA9A-11E9-9C1A-D9D1E5697425
last_name: Pal
orcid: 0000-0002-4530-8469
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Yingguang Frank
full_name: Chan, Yingguang Frank
last_name: Chan
- 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: Shipilina D, Pal A, Stankowski S, Chan YF, Barton NH. On the origin and structure
of haplotype blocks. Molecular Ecology. 2023;32(6):1441-1457. doi:10.1111/mec.16793
apa: Shipilina, D., Pal, A., Stankowski, S., Chan, Y. F., & Barton, N. H. (2023).
On the origin and structure of haplotype blocks. Molecular Ecology. Wiley.
https://doi.org/10.1111/mec.16793
chicago: Shipilina, Daria, Arka Pal, Sean Stankowski, Yingguang Frank Chan, and
Nicholas H Barton. “On the Origin and Structure of Haplotype Blocks.” Molecular
Ecology. Wiley, 2023. https://doi.org/10.1111/mec.16793.
ieee: D. Shipilina, A. Pal, S. Stankowski, Y. F. Chan, and N. H. Barton, “On the
origin and structure of haplotype blocks,” Molecular Ecology, vol. 32,
no. 6. Wiley, pp. 1441–1457, 2023.
ista: Shipilina D, Pal A, Stankowski S, Chan YF, Barton NH. 2023. On the origin
and structure of haplotype blocks. Molecular Ecology. 32(6), 1441–1457.
mla: Shipilina, Daria, et al. “On the Origin and Structure of Haplotype Blocks.”
Molecular Ecology, vol. 32, no. 6, Wiley, 2023, pp. 1441–57, doi:10.1111/mec.16793.
short: D. Shipilina, A. Pal, S. Stankowski, Y.F. Chan, N.H. Barton, Molecular Ecology
32 (2023) 1441–1457.
date_created: 2023-01-12T12:09:17Z
date_published: 2023-03-01T00:00:00Z
date_updated: 2023-08-16T08:18:47Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/mec.16793
external_id:
isi:
- '000900762000001'
pmid:
- '36433653'
file:
- access_level: open_access
checksum: b10e0f8fa3dc4d72aaf77a557200978a
content_type: application/pdf
creator: dernst
date_created: 2023-08-16T08:15:41Z
date_updated: 2023-08-16T08:15:41Z
file_id: '14062'
file_name: 2023_MolecularEcology_Shipilina.pdf
file_size: 7144607
relation: main_file
success: 1
file_date_updated: 2023-08-16T08:15:41Z
has_accepted_license: '1'
intvolume: ' 32'
isi: 1
issue: '6'
keyword:
- Genetics
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 1441-1457
pmid: 1
project:
- _id: 05959E1C-7A3F-11EA-A408-12923DDC885E
grant_number: P32166
name: The maintenance of alternative adaptive peaks in snapdragons
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: The Wittgenstein Prize
- _id: bd6958e0-d553-11ed-ba76-86eba6a76c00
grant_number: '101055327'
name: Understanding the evolution of continuous genomes
publication: Molecular Ecology
publication_identifier:
eissn:
- 1365-294X
issn:
- 0962-1083
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the origin and structure of haplotype blocks
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: 32
year: '2023'
...
---
_id: '12514'
abstract:
- lang: eng
text: The concept of a “speciation continuum” has gained popularity in recent decades.
It emphasizes speciation as a continuous process that may be studied by comparing
contemporary population pairs that show differing levels of divergence. In their
recent perspective article in Evolution, Stankowski and Ravinet provided a valuable
service by formally defining the speciation continuum as a continuum of reproductive
isolation, based on opinions gathered from a survey of speciation researchers.
While we agree that the speciation continuum has been a useful concept to advance
the understanding of the speciation process, some intrinsic limitations exist.
Here, we advocate for a multivariate extension, the speciation hypercube, first
proposed by Dieckmann et al. in 2004, but rarely used since. We extend the idea
of the speciation cube and suggest it has strong conceptual and practical advantages
over a one-dimensional model. We illustrate how the speciation hypercube can be
used to visualize and compare different speciation trajectories, providing new
insights into the processes and mechanisms of speciation. A key strength of the
speciation hypercube is that it provides a unifying framework for speciation research,
as it allows questions from apparently disparate subfields to be addressed in
a single conceptual model.
acknowledgement: "The authors of this article were supported by LMU Munich (J.B.W.W.),
a James S. McDonnell Foundation postdoctoral fellowship (A.K.H.). P.N. received
funding from the European Research Council (ERC) under the European Union’s Horizon
2020 research and innovation program (Grant agreement No. 770826 EE-Dynamics).\r\nWe
thank participants in the 2019 Gordon Conference on Speciation for the extensive
conversation on this topic. Thanks to Dan Funk for providing permission to use data
from Funk et al. 2006, and for comments on the manuscript."
article_processing_charge: No
article_type: original
author:
- first_name: Daniel I.
full_name: Bolnick, Daniel I.
last_name: Bolnick
- first_name: Amanda K.
full_name: Hund, Amanda K.
last_name: Hund
- first_name: Patrik
full_name: Nosil, Patrik
last_name: Nosil
- first_name: Foen
full_name: Peng, Foen
last_name: Peng
- first_name: Mark
full_name: Ravinet, Mark
last_name: Ravinet
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Swapna
full_name: Subramanian, Swapna
last_name: Subramanian
- first_name: Jochen B.W.
full_name: Wolf, Jochen B.W.
last_name: Wolf
- first_name: Roman
full_name: Yukilevich, Roman
last_name: Yukilevich
citation:
ama: 'Bolnick DI, Hund AK, Nosil P, et al. A multivariate view of the speciation
continuum. Evolution: International journal of organic evolution. 2023;77(1):318-328.
doi:10.1093/evolut/qpac004'
apa: 'Bolnick, D. I., Hund, A. K., Nosil, P., Peng, F., Ravinet, M., Stankowski,
S., … Yukilevich, R. (2023). A multivariate view of the speciation continuum.
Evolution: International Journal of Organic Evolution. Oxford University
Press. https://doi.org/10.1093/evolut/qpac004'
chicago: 'Bolnick, Daniel I., Amanda K. Hund, Patrik Nosil, Foen Peng, Mark Ravinet,
Sean Stankowski, Swapna Subramanian, Jochen B.W. Wolf, and Roman Yukilevich. “A
Multivariate View of the Speciation Continuum.” Evolution: International Journal
of Organic Evolution. Oxford University Press, 2023. https://doi.org/10.1093/evolut/qpac004.'
ieee: 'D. I. Bolnick et al., “A multivariate view of the speciation continuum,”
Evolution: International journal of organic evolution, vol. 77, no. 1.
Oxford University Press, pp. 318–328, 2023.'
ista: 'Bolnick DI, Hund AK, Nosil P, Peng F, Ravinet M, Stankowski S, Subramanian
S, Wolf JBW, Yukilevich R. 2023. A multivariate view of the speciation continuum.
Evolution: International journal of organic evolution. 77(1), 318–328.'
mla: 'Bolnick, Daniel I., et al. “A Multivariate View of the Speciation Continuum.”
Evolution: International Journal of Organic Evolution, vol. 77, no. 1,
Oxford University Press, 2023, pp. 318–28, doi:10.1093/evolut/qpac004.'
short: 'D.I. Bolnick, A.K. Hund, P. Nosil, F. Peng, M. Ravinet, S. Stankowski, S.
Subramanian, J.B.W. Wolf, R. Yukilevich, Evolution: International Journal of Organic
Evolution 77 (2023) 318–328.'
date_created: 2023-02-05T23:00:59Z
date_published: 2023-01-01T00:00:00Z
date_updated: 2023-08-01T12:58:30Z
day: '01'
department:
- _id: NiBa
doi: 10.1093/evolut/qpac004
external_id:
isi:
- '001021686300024'
pmid:
- '36622661'
intvolume: ' 77'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1093/evolut/qpac004
month: '01'
oa: 1
oa_version: Published Version
page: 318-328
pmid: 1
publication: 'Evolution: International journal of organic evolution'
publication_identifier:
eissn:
- 1558-5646
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: A multivariate view of the speciation continuum
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 77
year: '2023'
...
---
_id: '12001'
abstract:
- lang: eng
text: 'Sexual antagonism is a common hypothesis for driving the evolution of sex
chromosomes, whereby recombination suppression is favored between sexually antagonistic
loci and the sex-determining locus to maintain beneficial combinations of alleles.
This results in the formation of a sex-determining region. Chromosomal inversions
may contribute to recombination suppression but their precise role in sex chromosome
evolution remains unclear. Because local adaptation is frequently facilitated
through the suppression of recombination between adaptive loci by chromosomal
inversions, there is potential for inversions that cover sex-determining regions
to be involved in local adaptation as well, particularly if habitat variation
creates environment-dependent sexual antagonism. With these processes in mind,
we investigated sex determination in a well-studied example of local adaptation
within a species: the intertidal snail, Littorina saxatilis. Using SNP data from
a Swedish hybrid zone, we find novel evidence for a female-heterogametic sex determination
system that is restricted to one ecotype. Our results suggest that four putative
chromosomal inversions, two previously described and two newly discovered, span
the putative sex chromosome pair. We determine their differing associations with
sex, which suggest distinct strata of differing ages. The same inversions are
found in the second ecotype but do not show any sex association. The striking
disparity in inversion-sex associations between ecotypes that are connected by
gene flow across a habitat transition that is just a few meters wide indicates
a difference in selective regime that has produced a distinct barrier to the spread
of the newly discovered sex-determining region between ecotypes. Such sex chromosome-environment
interactions have not previously been uncovered in L. saxatilis and are known
in few other organisms. A combination of both sex-specific selection and divergent
natural selection is required to explain these highly unusual patterns.'
acknowledgement: We thank A. Wright and four anonymous reviewers for valuable comments
on an earlier draft of this manuscript and all members of the Littorina group for
helpful discussions. This work was supported by a European Research Council grant
to RKB and by a Natural Environment Research Council studentship to KEH through
the ACCE doctoral training program. KJ acknowledges support from the Swedish Science
Research Council VR (Vetenskaprådet) (2017-03798). RF was supported by an FCT CEEC
(Fundação para a Ciênca e a Tecnologia, Concurso Estímulo ao Emprego Científico)
contract (2020.00275.CEECIND).
article_processing_charge: Yes
article_type: original
author:
- first_name: Katherine E.
full_name: Hearn, Katherine E.
last_name: Hearn
- first_name: Eva L.
full_name: Koch, Eva L.
last_name: Koch
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- 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: Hearn KE, Koch EL, Stankowski S, et al. Differing associations between sex
determination and sex-linked inversions in two ecotypes of Littorina saxatilis.
Evolution Letters. 2022;6(5):358-374. doi:10.1002/evl3.295
apa: Hearn, K. E., Koch, E. L., Stankowski, S., Butlin, R. K., Faria, R., Johannesson,
K., & Westram, A. M. (2022). Differing associations between sex determination
and sex-linked inversions in two ecotypes of Littorina saxatilis. Evolution
Letters. Oxford Academic. https://doi.org/10.1002/evl3.295
chicago: Hearn, Katherine E., Eva L. Koch, Sean Stankowski, Roger K. Butlin, Rui
Faria, Kerstin Johannesson, and Anja M Westram. “Differing Associations between
Sex Determination and Sex-Linked Inversions in Two Ecotypes of Littorina Saxatilis.”
Evolution Letters. Oxford Academic, 2022. https://doi.org/10.1002/evl3.295.
ieee: K. E. Hearn et al., “Differing associations between sex determination
and sex-linked inversions in two ecotypes of Littorina saxatilis,” Evolution
Letters, vol. 6, no. 5. Oxford Academic, pp. 358–374, 2022.
ista: Hearn KE, Koch EL, Stankowski S, Butlin RK, Faria R, Johannesson K, Westram
AM. 2022. Differing associations between sex determination and sex-linked inversions
in two ecotypes of Littorina saxatilis. Evolution Letters. 6(5), 358–374.
mla: Hearn, Katherine E., et al. “Differing Associations between Sex Determination
and Sex-Linked Inversions in Two Ecotypes of Littorina Saxatilis.” Evolution
Letters, vol. 6, no. 5, Oxford Academic, 2022, pp. 358–74, doi:10.1002/evl3.295.
short: K.E. Hearn, E.L. Koch, S. Stankowski, R.K. Butlin, R. Faria, K. Johannesson,
A.M. Westram, Evolution Letters 6 (2022) 358–374.
date_created: 2022-08-28T22:02:02Z
date_published: 2022-10-01T00:00:00Z
date_updated: 2023-08-03T13:18:17Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1002/evl3.295
external_id:
isi:
- '000839621100001'
file:
- access_level: open_access
checksum: 2dcd06186a11b7d1be4cddc6b189f8fb
content_type: application/pdf
creator: dernst
date_created: 2023-02-27T07:17:42Z
date_updated: 2023-02-27T07:17:42Z
file_id: '12686'
file_name: 2022_EvolutionLetters_Hearn.pdf
file_size: 2368965
relation: main_file
success: 1
file_date_updated: 2023-02-27T07:17:42Z
has_accepted_license: '1'
intvolume: ' 6'
isi: 1
issue: '5'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 358-374
publication: Evolution Letters
publication_identifier:
eissn:
- 2056-3744
publication_status: published
publisher: Oxford Academic
quality_controlled: '1'
scopus_import: '1'
status: public
title: Differing associations between sex determination and sex-linked inversions
in two ecotypes of Littorina saxatilis
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: 6
year: '2022'
...
---
_id: '12234'
abstract:
- lang: eng
text: Hybrid speciation—the origin of new species resulting from the hybridization
of genetically divergent lineages—was once considered rare, but genomic data suggest
that it may occur more often than once thought. In this study, Noguerales and
Ortego found genomic evidence supporting the hybrid origin of a grasshopper that
is able to exploit a broader range of host plants than either of its putative
parents.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
citation:
ama: 'Stankowski S. Digest: On the origin of a possible hybrid species. Evolution.
2022;76(11):2784-2785. doi:10.1111/evo.14632'
apa: 'Stankowski, S. (2022). Digest: On the origin of a possible hybrid species.
Evolution. Wiley. https://doi.org/10.1111/evo.14632'
chicago: 'Stankowski, Sean. “Digest: On the Origin of a Possible Hybrid Species.”
Evolution. Wiley, 2022. https://doi.org/10.1111/evo.14632.'
ieee: 'S. Stankowski, “Digest: On the origin of a possible hybrid species,” Evolution,
vol. 76, no. 11. Wiley, pp. 2784–2785, 2022.'
ista: 'Stankowski S. 2022. Digest: On the origin of a possible hybrid species. Evolution.
76(11), 2784–2785.'
mla: 'Stankowski, Sean. “Digest: On the Origin of a Possible Hybrid Species.” Evolution,
vol. 76, no. 11, Wiley, 2022, pp. 2784–85, doi:10.1111/evo.14632.'
short: S. Stankowski, Evolution 76 (2022) 2784–2785.
date_created: 2023-01-16T09:50:48Z
date_published: 2022-11-01T00:00:00Z
date_updated: 2023-08-04T09:35:48Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/evo.14632
external_id:
isi:
- '000855751600001'
file:
- access_level: open_access
checksum: 4c0f05083b414ac0323a1b9ee1abc275
content_type: application/pdf
creator: dernst
date_created: 2023-01-27T11:28:38Z
date_updated: 2023-01-27T11:28:38Z
file_id: '12425'
file_name: 2022_Evolution_Stankowski.pdf
file_size: 287282
relation: main_file
success: 1
file_date_updated: 2023-01-27T11:28:38Z
has_accepted_license: '1'
intvolume: ' 76'
isi: 1
issue: '11'
keyword:
- General Agricultural and Biological Sciences
- Genetics
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 2784-2785
publication: Evolution
publication_identifier:
eissn:
- 1558-5646
issn:
- 0014-3820
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Digest: On the origin of a possible hybrid species'
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 76
year: '2022'
...
---
_id: '12264'
abstract:
- lang: eng
text: Reproductive isolation (RI) is a core concept in evolutionary biology. It
has been the central focus of speciation research since the modern synthesis and
is the basis by which biological species are defined. Despite this, the term is
used in seemingly different ways, and attempts to quantify RI have used very different
approaches. After showing that the field lacks a clear definition of the term,
we attempt to clarify key issues, including what RI is, how it can be quantified
in principle, and how it can be measured in practice. Following other definitions
with a genetic focus, we propose that RI is a quantitative measure of the effect
that genetic differences between populations have on gene flow. Specifically,
RI compares the flow of neutral alleles in the presence of these genetic differences
to the flow without any such differences. RI is thus greater than zero when genetic
differences between populations reduce the flow of neutral alleles between populations.
We show how RI can be quantified in a range of scenarios. A key conclusion is
that RI depends strongly on circumstances—including the spatial, temporal and
genomic context—making it difficult to compare across systems. After reviewing
methods for estimating RI from data, we conclude that it is difficult to measure
in practice. We discuss our findings in light of the goals of speciation research
and encourage the use of methods for estimating RI that integrate organismal and
genetic approaches.
acknowledgement: 'We are grateful to the participants of the ESEB satellite symposium
‘Understanding reproductive isolation: bridging conceptual barriers in speciation research’ in 2021 for the interesting discussions that helped us clarify the thoughts presented in this article. We thank Roger
Butlin, Michael Turelli and two anonymous reviewers for their thoughtful comments
on this manuscript. We are also very grateful to Roger Butlin and the Barton Group
for the continued conversa-tions about RI. In addition, we thank all participants
of the speciation survey. Part of this work was funded by the Austrian Science Fund
FWF (grant P 32166)'
article_processing_charge: Yes (via OA deal)
article_type: review
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: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Parvathy
full_name: Surendranadh, Parvathy
id: 455235B8-F248-11E8-B48F-1D18A9856A87
last_name: Surendranadh
- 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: Westram AM, Stankowski S, Surendranadh P, Barton NH. What is reproductive isolation?
Journal of Evolutionary Biology. 2022;35(9):1143-1164. doi:10.1111/jeb.14005
apa: Westram, A. M., Stankowski, S., Surendranadh, P., & Barton, N. H. (2022).
What is reproductive isolation? Journal of Evolutionary Biology. Wiley.
https://doi.org/10.1111/jeb.14005
chicago: Westram, Anja M, Sean Stankowski, Parvathy Surendranadh, and Nicholas H
Barton. “What Is Reproductive Isolation?” Journal of Evolutionary Biology.
Wiley, 2022. https://doi.org/10.1111/jeb.14005.
ieee: A. M. Westram, S. Stankowski, P. Surendranadh, and N. H. Barton, “What is
reproductive isolation?,” Journal of Evolutionary Biology, vol. 35, no.
9. Wiley, pp. 1143–1164, 2022.
ista: Westram AM, Stankowski S, Surendranadh P, Barton NH. 2022. What is reproductive
isolation? Journal of Evolutionary Biology. 35(9), 1143–1164.
mla: Westram, Anja M., et al. “What Is Reproductive Isolation?” Journal of Evolutionary
Biology, vol. 35, no. 9, Wiley, 2022, pp. 1143–64, doi:10.1111/jeb.14005.
short: A.M. Westram, S. Stankowski, P. Surendranadh, N.H. Barton, Journal of Evolutionary
Biology 35 (2022) 1143–1164.
date_created: 2023-01-16T09:59:24Z
date_published: 2022-09-01T00:00:00Z
date_updated: 2023-08-04T09:53:40Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/jeb.14005
external_id:
isi:
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pmid:
- '36063156'
file:
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checksum: f08de57112330a7ee88d2e1b20576a1e
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T10:05:31Z
date_updated: 2023-01-30T10:05:31Z
file_id: '12448'
file_name: 2022_JourEvoBiology_Westram.pdf
file_size: 3146793
relation: main_file
success: 1
file_date_updated: 2023-01-30T10:05:31Z
has_accepted_license: '1'
intvolume: ' 35'
isi: 1
issue: '9'
keyword:
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 1143-1164
pmid: 1
project:
- _id: 05959E1C-7A3F-11EA-A408-12923DDC885E
grant_number: P32166
name: The maintenance of alternative adaptive peaks in snapdragons
publication: Journal of Evolutionary Biology
publication_identifier:
eissn:
- 1420-9101
issn:
- 1010-061X
publication_status: published
publisher: Wiley
quality_controlled: '1'
related_material:
record:
- id: '12265'
relation: other
status: public
scopus_import: '1'
status: public
title: What is reproductive isolation?
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: 35
year: '2022'
...
---
_id: '12265'
acknowledgement: We are very grateful to the authors of the commentaries for the interesting
discussion and to Luke Holman for handling this set of manuscripts. Part of this
work was funded by the Austrian Science Fund FWF (grant P 32166).
article_processing_charge: Yes (via OA deal)
article_type: letter_note
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: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Parvathy
full_name: Surendranadh, Parvathy
id: 455235B8-F248-11E8-B48F-1D18A9856A87
last_name: Surendranadh
- 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: 'Westram AM, Stankowski S, Surendranadh P, Barton NH. Reproductive isolation,
speciation, and the value of disagreement: A reply to the commentaries on ‘What
is reproductive isolation?’ Journal of Evolutionary Biology. 2022;35(9):1200-1205.
doi:10.1111/jeb.14082'
apa: 'Westram, A. M., Stankowski, S., Surendranadh, P., & Barton, N. H. (2022).
Reproductive isolation, speciation, and the value of disagreement: A reply to
the commentaries on ‘What is reproductive isolation?’ Journal of Evolutionary
Biology. Wiley. https://doi.org/10.1111/jeb.14082'
chicago: 'Westram, Anja M, Sean Stankowski, Parvathy Surendranadh, and Nicholas
H Barton. “Reproductive Isolation, Speciation, and the Value of Disagreement:
A Reply to the Commentaries on ‘What Is Reproductive Isolation?’” Journal of
Evolutionary Biology. Wiley, 2022. https://doi.org/10.1111/jeb.14082.'
ieee: 'A. M. Westram, S. Stankowski, P. Surendranadh, and N. H. Barton, “Reproductive
isolation, speciation, and the value of disagreement: A reply to the commentaries
on ‘What is reproductive isolation?,’” Journal of Evolutionary Biology,
vol. 35, no. 9. Wiley, pp. 1200–1205, 2022.'
ista: 'Westram AM, Stankowski S, Surendranadh P, Barton NH. 2022. Reproductive isolation,
speciation, and the value of disagreement: A reply to the commentaries on ‘What
is reproductive isolation?’ Journal of Evolutionary Biology. 35(9), 1200–1205.'
mla: 'Westram, Anja M., et al. “Reproductive Isolation, Speciation, and the Value
of Disagreement: A Reply to the Commentaries on ‘What Is Reproductive Isolation?’”
Journal of Evolutionary Biology, vol. 35, no. 9, Wiley, 2022, pp. 1200–05,
doi:10.1111/jeb.14082.'
short: A.M. Westram, S. Stankowski, P. Surendranadh, N.H. Barton, Journal of Evolutionary
Biology 35 (2022) 1200–1205.
date_created: 2023-01-16T09:59:37Z
date_published: 2022-09-01T00:00:00Z
date_updated: 2023-08-04T09:53:41Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/jeb.14082
external_id:
isi:
- '000849851100009'
file:
- access_level: open_access
checksum: 27268009e5eec030bc10667a4ac5ed4c
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T10:14:09Z
date_updated: 2023-01-30T10:14:09Z
file_id: '12449'
file_name: 2022_JourEvoBiology_Westram_Response.pdf
file_size: 349603
relation: main_file
success: 1
file_date_updated: 2023-01-30T10:14:09Z
has_accepted_license: '1'
intvolume: ' 35'
isi: 1
issue: '9'
keyword:
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 1200-1205
project:
- _id: 05959E1C-7A3F-11EA-A408-12923DDC885E
grant_number: P32166
name: The maintenance of alternative adaptive peaks in snapdragons
publication: Journal of Evolutionary Biology
publication_identifier:
eissn:
- 1420-9101
issn:
- 1010-061X
publication_status: published
publisher: Wiley
quality_controlled: '1'
related_material:
record:
- id: '12264'
relation: other
status: public
scopus_import: '1'
status: public
title: 'Reproductive isolation, speciation, and the value of disagreement: A reply
to the commentaries on ‘What is reproductive isolation?’'
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: 35
year: '2022'
...
---
_id: '8743'
abstract:
- lang: eng
text: 'Montane cloud forests are areas of high endemism, and are one of the more
vulnerable terrestrial ecosystems to climate change. Thus, understanding how they
both contribute to the generation of biodiversity, and will respond to ongoing
climate change, are important and related challenges. The widely accepted model
for montane cloud forest dynamics involves upslope forcing of their range limits
with global climate warming. However, limited climate data provides some support
for an alternative model, where range limits are forced downslope with climate
warming. Testing between these two models is challenging, due to the inherent
limitations of climate and pollen records. We overcome this with an alternative
source of historical information, testing between competing model predictions
using genomic data and demographic analyses for a species of beetle tightly associated
to an oceanic island cloud forest. Results unequivocally support the alternative
model: populations that were isolated at higher elevation peaks during the Last
Glacial Maximum are now in contact and hybridizing at lower elevations. Our results
suggest that genomic data are a rich source of information to further understand
how montane cloud forest biodiversity originates, and how it is likely to be impacted
by ongoing climate change.'
acknowledgement: 'This work was financed by the Spanish Agencia Estatal de Investigación
(CGL2017‐85718‐P), awarded to BCE, and co‐financed by FEDER. It was also supported
by the Spanish Ministerio de Ciencia, Innovación y Universidades (EQC2018‐004418‐P),
awarded to BCE. AS‐C was funded by the Spanish Ministerio de Ciencia, Innovación
y Universidades through an FPU PhD fellowship (FPU014/02948). The authors thank
Instituto Tecnológico y de Energías Renovables (ITER), S.A for providing access
to the Teide High‐Performance Computing facility (Teide‐HPC). Fieldwork was supported
by collecting permit AFF 107/17 (sigma number 2017‐00572) kindly provided by the
Cabildo of Tenerife. The authors wish to thank the following for field work and
sample sorting and identification: A. J. Pérez‐Delgado, H. López, and C. Andújar.
We also thank V. García‐Olivares for assistance with laboratory and bioinformatic
work.'
article_processing_charge: No
article_type: original
author:
- first_name: Antonia
full_name: Salces-Castellano, Antonia
last_name: Salces-Castellano
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Paula
full_name: Arribas, Paula
last_name: Arribas
- first_name: Jairo
full_name: Patino, Jairo
last_name: Patino
- first_name: 'Dirk N. '
full_name: 'Karger, Dirk N. '
last_name: Karger
- first_name: Roger
full_name: Butlin, Roger
last_name: Butlin
- first_name: Brent C.
full_name: Emerson, Brent C.
last_name: Emerson
citation:
ama: Salces-Castellano A, Stankowski S, Arribas P, et al. Long-term cloud forest
response to climate warming revealed by insect speciation history. Evolution.
2021;75(2):231-244. doi:10.1111/evo.14111
apa: Salces-Castellano, A., Stankowski, S., Arribas, P., Patino, J., Karger, D.
N., Butlin, R., & Emerson, B. C. (2021). Long-term cloud forest response to
climate warming revealed by insect speciation history. Evolution. Wiley.
https://doi.org/10.1111/evo.14111
chicago: Salces-Castellano, Antonia, Sean Stankowski, Paula Arribas, Jairo Patino,
Dirk N. Karger, Roger Butlin, and Brent C. Emerson. “Long-Term Cloud Forest Response
to Climate Warming Revealed by Insect Speciation History.” Evolution. Wiley,
2021. https://doi.org/10.1111/evo.14111.
ieee: A. Salces-Castellano et al., “Long-term cloud forest response to climate
warming revealed by insect speciation history,” Evolution, vol. 75, no.
2. Wiley, pp. 231–244, 2021.
ista: Salces-Castellano A, Stankowski S, Arribas P, Patino J, Karger DN, Butlin
R, Emerson BC. 2021. Long-term cloud forest response to climate warming revealed
by insect speciation history. Evolution. 75(2), 231–244.
mla: Salces-Castellano, Antonia, et al. “Long-Term Cloud Forest Response to Climate
Warming Revealed by Insect Speciation History.” Evolution, vol. 75, no.
2, Wiley, 2021, pp. 231–44, doi:10.1111/evo.14111.
short: A. Salces-Castellano, S. Stankowski, P. Arribas, J. Patino, D.N. Karger,
R. Butlin, B.C. Emerson, Evolution 75 (2021) 231–244.
date_created: 2020-11-08T23:01:26Z
date_published: 2021-02-01T00:00:00Z
date_updated: 2023-08-04T11:09:49Z
day: '01'
department:
- _id: NiBa
doi: 10.1111/evo.14111
external_id:
isi:
- '000583190600001'
pmid:
- '33078844'
intvolume: ' 75'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://hdl.handle.net/10261/223937
month: '02'
oa: 1
oa_version: Submitted Version
page: 231-244
pmid: 1
publication: Evolution
publication_identifier:
eissn:
- 1558-5646
issn:
- 0014-3820
publication_status: published
publisher: Wiley
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: https://doi.org/10.1111/evo.14225
scopus_import: '1'
status: public
title: Long-term cloud forest response to climate warming revealed by insect speciation
history
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 75
year: '2021'
...
---
_id: '14984'
abstract:
- lang: eng
text: Hybrid zones are narrow geographic regions where different populations, races
or interbreeding species meet and mate, producing mixed ‘hybrid’ offspring. They
are relatively common and can be found in a diverse range of organisms and environments.
The study of hybrid zones has played an important role in our understanding of
the origin of species, with hybrid zones having been described as ‘natural laboratories’.
This is because they allow us to study,in situ, the conditions and evolutionary
forces that enable divergent taxa to remain distinct despite some ongoing gene
exchange between them.
article_processing_charge: No
author:
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Daria
full_name: Shipilina, Daria
id: 428A94B0-F248-11E8-B48F-1D18A9856A87
last_name: Shipilina
orcid: 0000-0002-1145-9226
- 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: 'Stankowski S, Shipilina D, Westram AM. Hybrid Zones. In: Encyclopedia of
Life Sciences. Vol 2. eLS. Wiley; 2021. doi:10.1002/9780470015902.a0029355'
apa: Stankowski, S., Shipilina, D., & Westram, A. M. (2021). Hybrid Zones. In
Encyclopedia of Life Sciences (Vol. 2). Wiley. https://doi.org/10.1002/9780470015902.a0029355
chicago: Stankowski, Sean, Daria Shipilina, and Anja M Westram. “Hybrid Zones.”
In Encyclopedia of Life Sciences, Vol. 2. ELS. Wiley, 2021. https://doi.org/10.1002/9780470015902.a0029355.
ieee: S. Stankowski, D. Shipilina, and A. M. Westram, “Hybrid Zones,” in Encyclopedia
of Life Sciences, vol. 2, Wiley, 2021.
ista: 'Stankowski S, Shipilina D, Westram AM. 2021.Hybrid Zones. In: Encyclopedia
of Life Sciences. vol. 2.'
mla: Stankowski, Sean, et al. “Hybrid Zones.” Encyclopedia of Life Sciences,
vol. 2, Wiley, 2021, doi:10.1002/9780470015902.a0029355.
short: S. Stankowski, D. Shipilina, A.M. Westram, in:, Encyclopedia of Life Sciences,
Wiley, 2021.
date_created: 2024-02-14T12:05:50Z
date_published: 2021-05-28T00:00:00Z
date_updated: 2024-02-19T09:54:18Z
day: '28'
department:
- _id: NiBa
doi: 10.1002/9780470015902.a0029355
intvolume: ' 2'
language:
- iso: eng
month: '05'
oa_version: None
publication: Encyclopedia of Life Sciences
publication_identifier:
eisbn:
- '9780470015902'
isbn:
- '9780470016176'
publication_status: published
publisher: Wiley
quality_controlled: '1'
series_title: eLS
status: public
title: Hybrid Zones
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2021'
...
---
_id: '9100'
abstract:
- lang: eng
text: 'Marine environments are inhabited by a broad representation of the tree of
life, yet our understanding of speciation in marine ecosystems is extremely limited
compared with terrestrial and freshwater environments. Developing a more comprehensive
picture of speciation in marine environments requires that we ''dive under the
surface'' by studying a wider range of taxa and ecosystems is necessary for a
more comprehensive picture of speciation. Although studying marine evolutionary
processes is often challenging, recent technological advances in different fields,
from maritime engineering to genomics, are making it increasingly possible to
study speciation of marine life forms across diverse ecosystems and taxa. Motivated
by recent research in the field, including the 14 contributions in this issue,
we highlight and discuss six axes of research that we think will deepen our understanding
of speciation in the marine realm: (a) study a broader range of marine environments
and organisms; (b) identify the reproductive barriers driving speciation between
marine taxa; (c) understand the role of different genomic architectures underlying
reproductive isolation; (d) infer the evolutionary history of divergence using
model‐based approaches; (e) study patterns of hybridization and introgression
between marine taxa; and (f) implement highly interdisciplinary, collaborative
research programmes. In outlining these goals, we hope to inspire researchers
to continue filling this critical knowledge gap surrounding the origins of marine
biodiversity.'
acknowledgement: "We would like to thank all the participants in the speciation symposium
of the Marine Evolution Conference in Sweden for the interesting discussions and
to all the contributors to this special\r\nissue. We thank Nicolas Bierne and Wolf
Blanckenhorn (reviewer and editor, respectively) for valuable suggestions during
the revision of the manuscript, and Roger K. Butlin and Anja M. Westram for very
helpful comments on a previous draft. We would also like to thank Wolf Blanckenhorn
and Nicola Cook, the Editor in Chief and the Managing Editor of the Journal of Evolutionary
Biology, respectively, for the encouragement and support in putting together this
special issue, and to all reviewers involved. RF was financed by the European Union's
Horizon 2020 Research and Innovation Programme under the Marie Sklodowska-Curie
Grant Agreement Number 706376 and is currently financed by the FEDER Funds through
the Operational Competitiveness Factors Program COMPETE and by National Funds through
the Foundation for Science and Technology (FCT) within the scope of the project
‘Hybrabbid' (PTDC/BIA-EVL/30628/2017-POCI-01-0145-FEDER-030628). KJ was funded by
the Swedish\r\nResearch Council, VR. SS was supported by NERC and ERC funding awarded
to Roger K. Butlin."
article_processing_charge: No
article_type: original
author:
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
citation:
ama: 'Faria R, Johannesson K, Stankowski S. Speciation in marine environments: Diving
under the surface. Journal of Evolutionary Biology. 2021;34(1):4-15. doi:10.1111/jeb.13756'
apa: 'Faria, R., Johannesson, K., & Stankowski, S. (2021). Speciation in marine
environments: Diving under the surface. Journal of Evolutionary Biology.
Wiley. https://doi.org/10.1111/jeb.13756'
chicago: 'Faria, Rui, Kerstin Johannesson, and Sean Stankowski. “Speciation in Marine
Environments: Diving under the Surface.” Journal of Evolutionary Biology.
Wiley, 2021. https://doi.org/10.1111/jeb.13756.'
ieee: 'R. Faria, K. Johannesson, and S. Stankowski, “Speciation in marine environments:
Diving under the surface,” Journal of Evolutionary Biology, vol. 34, no.
1. Wiley, pp. 4–15, 2021.'
ista: 'Faria R, Johannesson K, Stankowski S. 2021. Speciation in marine environments:
Diving under the surface. Journal of Evolutionary Biology. 34(1), 4–15.'
mla: 'Faria, Rui, et al. “Speciation in Marine Environments: Diving under the Surface.”
Journal of Evolutionary Biology, vol. 34, no. 1, Wiley, 2021, pp. 4–15,
doi:10.1111/jeb.13756.'
short: R. Faria, K. Johannesson, S. Stankowski, Journal of Evolutionary Biology
34 (2021) 4–15.
date_created: 2021-02-07T23:01:13Z
date_published: 2021-01-18T00:00:00Z
date_updated: 2023-08-07T13:42:08Z
day: '18'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/jeb.13756
external_id:
isi:
- '000608367500001'
file:
- access_level: open_access
checksum: 5755856a5368d4b4cdd6fad5ab27f4d1
content_type: application/pdf
creator: dernst
date_created: 2021-02-09T09:04:02Z
date_updated: 2021-02-09T09:04:02Z
file_id: '9108'
file_name: 2021_JourEvolBiology_Faria.pdf
file_size: 561340
relation: main_file
success: 1
file_date_updated: 2021-02-09T09:04:02Z
has_accepted_license: '1'
intvolume: ' 34'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 4-15
publication: Journal of Evolutionary Biology
publication_identifier:
eissn:
- '14209101'
issn:
- 1010061X
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Speciation in marine environments: Diving under the surface'
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: 34
year: '2021'
...
---
_id: '9383'
abstract:
- lang: eng
text: A primary roadblock to our understanding of speciation is that it usually
occurs over a timeframe that is too long to study from start to finish. The idea
of a speciation continuum provides something of a solution to this problem; rather
than observing the entire process, we can simply reconstruct it from the multitude
of speciation events that surround us. But what do we really mean when we talk
about the speciation continuum, and can it really help us understand speciation?
We explored these questions using a literature review and online survey of speciation
researchers. Although most researchers were familiar with the concept and thought
it was useful, our survey revealed extensive disagreement about what the speciation
continuum actually tells us. This is due partly to the lack of a clear definition.
Here, we provide an explicit definition that is compatible with the Biological
Species Concept. That is, the speciation continuum is a continuum of reproductive
isolation. After outlining the logic of the definition in light of alternatives,
we explain why attempts to reconstruct the speciation process from present‐day
populations will ultimately fail. We then outline how we think the speciation
continuum concept can continue to act as a foundation for understanding the continuum
of reproductive isolation that surrounds us.
acknowledgement: We thank M. Garlovsky, S. Martin, C. Cooney, C. Roux, J. Larson,
and J. Mallet for critical feedback and for discussion. K. Lohse, M. de la Cámara,
J. Cerca, M. A. Chase, C. Baskett, A. M. Westram, and N. H. Barton gave feedback
on a draft of the manuscript. O. Seehausen, two anonymous reviewers, and the AE
(Michael Kopp) provided comments that greatly improved the manuscript. V. Holzmann
made many corrections to the proofs. G. Bisschop and K. Lohse kindly contributed
the simulations and analyses presented in Box 3. We would also like to extend our
thanks to everyone who took part in the speciation survey, which received ethical
approval through the University of Sheffield Ethics Review Procedure (Application
029768). We are especially grateful to R. K. Butlin for stimulating discussion throughout
the writing of the manuscript and for feedback on an earlier draft.
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: Mark
full_name: Ravinet, Mark
last_name: Ravinet
citation:
ama: Stankowski S, Ravinet M. Defining the speciation continuum. Evolution.
2021;75(6):1256-1273. doi:10.1111/evo.14215
apa: Stankowski, S., & Ravinet, M. (2021). Defining the speciation continuum.
Evolution. Oxford University Press. https://doi.org/10.1111/evo.14215
chicago: Stankowski, Sean, and Mark Ravinet. “Defining the Speciation Continuum.”
Evolution. Oxford University Press, 2021. https://doi.org/10.1111/evo.14215.
ieee: S. Stankowski and M. Ravinet, “Defining the speciation continuum,” Evolution,
vol. 75, no. 6. Oxford University Press, pp. 1256–1273, 2021.
ista: Stankowski S, Ravinet M. 2021. Defining the speciation continuum. Evolution.
75(6), 1256–1273.
mla: Stankowski, Sean, and Mark Ravinet. “Defining the Speciation Continuum.” Evolution,
vol. 75, no. 6, Oxford University Press, 2021, pp. 1256–73, doi:10.1111/evo.14215.
short: S. Stankowski, M. Ravinet, Evolution 75 (2021) 1256–1273.
date_created: 2021-05-09T22:01:39Z
date_published: 2021-03-22T00:00:00Z
date_updated: 2023-10-18T08:16:01Z
day: '22'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/evo.14215
external_id:
isi:
- '000647226400001'
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checksum: 96f6ccf15d95a4e9f7c0b27eee570fa6
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creator: kschuh
date_created: 2022-03-25T12:02:04Z
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file_size: 719991
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month: '03'
oa: 1
oa_version: Published Version
page: 1256-1273
publication: Evolution
publication_identifier:
eissn:
- 1558-5646
issn:
- 0014-3820
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Defining the speciation continuum
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: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 75
year: '2021'
...
---
_id: '9392'
abstract:
- lang: eng
text: 'Humans conceptualize the diversity of life by classifying individuals into
types we call ‘species’1. The species we recognize influence political and financial
decisions and guide our understanding of how units of diversity evolve and interact.
Although the idea of species may seem intuitive, a debate about the best way to
define them has raged even before Darwin2. So much energy has been devoted to
the so-called ‘species problem’ that no amount of discourse will ever likely solve
it2,3. Dozens of species concepts are currently recognized3, but we lack a concrete
understanding of how much researchers actually disagree and the factors that cause
them to think differently1,2. To address this, we used a survey to quantify the
species problem for the first time. The results indicate that the disagreement
is extensive: two randomly chosen respondents will most likely disagree on the
nature of species. The probability of disagreement is not predicted by researcher
experience or broad study system, but tended to be lower among researchers with
similar focus, training and who study the same organism. Should we see this diversity
of perspectives as a problem? We argue that we should not.'
acknowledgement: We thank Christopher Cooney, Martin Garlovsky, Anja M. Westram, Carina
Baskett, Stefanie Belohlavy, Michal Hledik, Arka Pal, Nicholas H. Barton, Roger
K. Butlin and members of the University of Sheffield Speciation Journal Club for
feedback on draft survey questions and/or comments on a draft manuscript. Three
anonymous reviewers gave thoughtful feedback that improved the manuscript. We thank
Ahmad Nadeem, who was paid to build the Shiny app. We are especially grateful to
everyone who took part in the survey. Ethical approval for the survey was obtained
through the University of Sheffield Ethics Review Procedure (Application 029768).
S.S. was supported by a NERC grant awarded to Roger K. Butlin.
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: Mark
full_name: Ravinet, Mark
last_name: Ravinet
citation:
ama: Stankowski S, Ravinet M. Quantifying the use of species concepts. Current
Biology. 2021;31(9):R428-R429. doi:10.1016/j.cub.2021.03.060
apa: Stankowski, S., & Ravinet, M. (2021). Quantifying the use of species concepts.
Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2021.03.060
chicago: Stankowski, Sean, and Mark Ravinet. “Quantifying the Use of Species Concepts.”
Current Biology. Cell Press, 2021. https://doi.org/10.1016/j.cub.2021.03.060.
ieee: S. Stankowski and M. Ravinet, “Quantifying the use of species concepts,” Current
Biology, vol. 31, no. 9. Cell Press, pp. R428–R429, 2021.
ista: Stankowski S, Ravinet M. 2021. Quantifying the use of species concepts. Current
Biology. 31(9), R428–R429.
mla: Stankowski, Sean, and Mark Ravinet. “Quantifying the Use of Species Concepts.”
Current Biology, vol. 31, no. 9, Cell Press, 2021, pp. R428–29, doi:10.1016/j.cub.2021.03.060.
short: S. Stankowski, M. Ravinet, Current Biology 31 (2021) R428–R429.
date_created: 2021-05-16T22:01:46Z
date_published: 2021-05-10T00:00:00Z
date_updated: 2023-08-08T13:34:38Z
day: '10'
department:
- _id: NiBa
doi: 10.1016/j.cub.2021.03.060
external_id:
isi:
- '000654741200004'
pmid:
- '33974865'
intvolume: ' 31'
isi: 1
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.cub.2021.03.060
month: '05'
oa: 1
oa_version: Published Version
page: R428-R429
pmid: 1
publication: Current Biology
publication_identifier:
eissn:
- '18790445'
issn:
- '09609822'
publication_status: published
publisher: Cell Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Quantifying the use of species concepts
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 31
year: '2021'
...
---
_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'
...