Section: Mathematical & Computational Biology
Topic:
Biophysics and computational biology,
Genetics/Genomics,
Population biology
Population genetics: coalescence rate and demographic parameters inference
Corresponding author(s): Mazet, Olivier (omazet@insa-toulouse.fr)
10.24072/pcjournal.285 - Peer Community Journal, Volume 3 (2023), article no. e53.
Get full text PDF Peer reviewed and recommended by PCI
Inferring the demographic history of species is a great challenge in population genetics. This history is classically represented as a history of size changes, ignoring population structure. We present here the work carried out over the last decade around the concept of IICR (Inverse Instantaneous Coalescence Rate), which makes it possible to link, on the one hand, the history of the true population size for a panmictic population, and the inferred size, sometimes called "effective size", when structure is taken into account. We show that population structure can lead to misinterpretations of some demographic history inference results, we propose a framework for inferring structure-specific demographic parameters (number and size of subpopulations, migration rates), and we analyze the link between IICR and some form of selection modeling on genetic sequences.
Type: Research article
Mazet, Olivier 1; Noûs, Camille 2
CC-BY 4.0
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author = {Mazet, Olivier and No\^us, Camille},
title = {Population genetics: coalescence rate and demographic parameters inference},
journal = {Peer Community Journal},
eid = {e53},
publisher = {Peer Community In},
volume = {3},
year = {2023},
doi = {10.24072/pcjournal.285},
language = {en},
url = {https://peercommunityjournal.org/articles/10.24072/pcjournal.285/}
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TY - JOUR AU - Mazet, Olivier AU - Noûs, Camille TI - Population genetics: coalescence rate and demographic parameters inference JO - Peer Community Journal PY - 2023 VL - 3 PB - Peer Community In UR - https://peercommunityjournal.org/articles/10.24072/pcjournal.285/ DO - 10.24072/pcjournal.285 LA - en ID - 10_24072_pcjournal_285 ER -
%0 Journal Article %A Mazet, Olivier %A Noûs, Camille %T Population genetics: coalescence rate and demographic parameters inference %J Peer Community Journal %D 2023 %V 3 %I Peer Community In %U https://peercommunityjournal.org/articles/10.24072/pcjournal.285/ %R 10.24072/pcjournal.285 %G en %F 10_24072_pcjournal_285
Mazet, Olivier; Noûs, Camille. Population genetics: coalescence rate and demographic parameters inference. Peer Community Journal, Volume 3 (2023), article no. e53. doi : 10.24072/pcjournal.285. https://peercommunityjournal.org/articles/10.24072/pcjournal.285/
PCI peer reviews and recommendation, and links to data, scripts, code and supplementary information: 10.24072/pci.mcb.100150
Conflict of interest of the recommender and peer reviewers:
The recommender in charge of the evaluation of the article and the reviewers declared that they have no conflict of interest (as defined in the code of conduct of PCI) with the authors or with the content of the article.
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