Comparable Number of Genes Having Experienced Positive Selection among Great Ape Species

Alleles that cause advantageous phenotypes with positive selection contribute to adaptive evolution. Investigations of positive selection in protein-coding genes rely on the accuracy of orthology, models, the quality of assemblies, and alignment. Here, based on the latest genome assemblies and gene...

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Autores principales:	Duo Xie, Guangji Chen, Xiaoyu Meng, Haotian Wang, Xupeng Bi, Miaoquan Fang, Chentao Yang, Yang Zhou, Erping Long, Shaohong Feng
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	great ape evolution adaptive evolution positive selection gene comparative genomics Veterinary medicine SF600-1100 Zoology QL1-991
Acceso en línea:	https://doaj.org/article/222ada07985349e59a54a6364a143f52
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spelling	oai:doaj.org-article:222ada07985349e59a54a6364a143f522021-11-25T16:19:59ZComparable Number of Genes Having Experienced Positive Selection among Great Ape Species10.3390/ani111132642076-2615https://doaj.org/article/222ada07985349e59a54a6364a143f522021-11-01T00:00:00Zhttps://www.mdpi.com/2076-2615/11/11/3264https://doaj.org/toc/2076-2615Alleles that cause advantageous phenotypes with positive selection contribute to adaptive evolution. Investigations of positive selection in protein-coding genes rely on the accuracy of orthology, models, the quality of assemblies, and alignment. Here, based on the latest genome assemblies and gene annotations, we present a comparative analysis on positive selection in four great ape species and identify 211 high-confidence positively selected genes (PSGs). Even the differences in population size among these closely related great apes have resulted in differences in their ability to remove deleterious alleles and to adapt to changing environments, we found that they experienced comparable numbers of positive selection. We also uncovered that more than half of multigene families exhibited signals of positive selection, suggesting that imbalanced positive selection resulted in the functional divergence of duplicates. Moreover, at the expression level, although positive selection led to a more non-uniform pattern across tissues, the correlation between positive selection and expression patterns is diverse. Overall, this updated list of PSGs is of great significance for the further study of the phenotypic evolution in great apes.Duo XieGuangji ChenXiaoyu MengHaotian WangXupeng BiMiaoquan FangChentao YangYang ZhouErping LongShaohong FengMDPI AGarticlegreat apeevolutionadaptive evolutionpositive selection genecomparative genomicsVeterinary medicineSF600-1100ZoologyQL1-991ENAnimals, Vol 11, Iss 3264, p 3264 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	great ape evolution adaptive evolution positive selection gene comparative genomics Veterinary medicine SF600-1100 Zoology QL1-991
spellingShingle	great ape evolution adaptive evolution positive selection gene comparative genomics Veterinary medicine SF600-1100 Zoology QL1-991 Duo Xie Guangji Chen Xiaoyu Meng Haotian Wang Xupeng Bi Miaoquan Fang Chentao Yang Yang Zhou Erping Long Shaohong Feng Comparable Number of Genes Having Experienced Positive Selection among Great Ape Species
description	Alleles that cause advantageous phenotypes with positive selection contribute to adaptive evolution. Investigations of positive selection in protein-coding genes rely on the accuracy of orthology, models, the quality of assemblies, and alignment. Here, based on the latest genome assemblies and gene annotations, we present a comparative analysis on positive selection in four great ape species and identify 211 high-confidence positively selected genes (PSGs). Even the differences in population size among these closely related great apes have resulted in differences in their ability to remove deleterious alleles and to adapt to changing environments, we found that they experienced comparable numbers of positive selection. We also uncovered that more than half of multigene families exhibited signals of positive selection, suggesting that imbalanced positive selection resulted in the functional divergence of duplicates. Moreover, at the expression level, although positive selection led to a more non-uniform pattern across tissues, the correlation between positive selection and expression patterns is diverse. Overall, this updated list of PSGs is of great significance for the further study of the phenotypic evolution in great apes.
format	article
author	Duo Xie Guangji Chen Xiaoyu Meng Haotian Wang Xupeng Bi Miaoquan Fang Chentao Yang Yang Zhou Erping Long Shaohong Feng
author_facet	Duo Xie Guangji Chen Xiaoyu Meng Haotian Wang Xupeng Bi Miaoquan Fang Chentao Yang Yang Zhou Erping Long Shaohong Feng
author_sort	Duo Xie
title	Comparable Number of Genes Having Experienced Positive Selection among Great Ape Species
title_short	Comparable Number of Genes Having Experienced Positive Selection among Great Ape Species
title_full	Comparable Number of Genes Having Experienced Positive Selection among Great Ape Species
title_fullStr	Comparable Number of Genes Having Experienced Positive Selection among Great Ape Species
title_full_unstemmed	Comparable Number of Genes Having Experienced Positive Selection among Great Ape Species
title_sort	comparable number of genes having experienced positive selection among great ape species
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/222ada07985349e59a54a6364a143f52
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Comparable Number of Genes Having Experienced Positive Selection among Great Ape Species

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