Dataset Information

Deep whole-genome resequencing sheds light on the distribution and effect of amphioxus SNPs.

ABSTRACT:

Background

Amphioxus is a model organism for vertebrate evolutionary research. The significant contrast between morphological phenotypic similarity and high-level genetic polymorphism among amphioxus populations has aroused scientists' attention. Here we resequenced 21 amphioxus genomes to over 100X depth and mapped them to a haploid reference.

Results

More than 11.5 million common SNPs were detected in the amphioxus population, which mainly affect genes enriched in ion transport, signal transduction and cell adhesion, while protein structure analysis via AlphaFold2 revealed that these SNPs fail to bring effective structural variants.

Conclusions

Our work provides explanation for "amphioxus polymorphism paradox" in a micro view, and generates an enhanced genomic dataset for amphioxus research.

SUBMITTER: Zhu Y

PROVIDER: S-EPMC8994340 | biostudies-literature | 2022 Apr

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Deep whole-genome resequencing sheds light on the distribution and effect of amphioxus SNPs.

Zhu Yunchi Y Lu Na N Chen J-Y JY He Chunpeng C Huang Zhen Z Lu Zuhong Z

BMC genomic data 20220408 1

<h4>Background</h4>Amphioxus is a model organism for vertebrate evolutionary research. The significant contrast between morphological phenotypic similarity and high-level genetic polymorphism among amphioxus populations has aroused scientists' attention. Here we resequenced 21 amphioxus genomes to over 100X depth and mapped them to a haploid reference.<h4>Results</h4>More than 11.5 million common SNPs were detected in the amphioxus population, which mainly affect genes enriched in ion transport, ...[more]

PMID: 35395709

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Dataset Information

Deep whole-genome resequencing sheds light on the distribution and effect of amphioxus SNPs.

Background

Results

Conclusions

Publications

Deep whole-genome resequencing sheds light on the distribution and effect of amphioxus SNPs.

Similar Datasets

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