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全基因组关联研究棉属种子生物量相关性状

Genome-wide association study for seedling biomass-related traits in Gossypium arboreum L.

机构信息

Institute of Cotton Research, Chinese Academy of Agricultural Sciences, State Key Laboratory of Cotton Biology, Anyang, 455000, Henan, China.

Anyang Institute of Technology, Anyang, 455000, China.

出版信息

BMC Plant Biol. 2022 Jan 27;22(1):54. doi: 10.1186/s12870-022-03443-w.

DOI:10.1186/s12870-022-03443-w
PMID:35086471
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC8793229/
Abstract

BACKGROUND

Seedling stage plant biomass is usually used as an auxiliary trait to study plant growth and development or stress adversities. However, few molecular markers and candidate genes of seedling biomass-related traits were found in cotton.

RESULT

Here, we collected 215 Gossypium arboreum accessions, and investigated 11 seedling biomass-related traits including the fresh weight, dry weight, water content, and root shoot ratio. A genome-wide association study (GWAS) utilizing 142,5003 high-quality SNPs identified 83 significant associations and 69 putative candidate genes. Furthermore, the transcriptome profile of the candidate genes emphasized higher expression of Ga03G1298, Ga09G2054, Ga10G1342, Ga11G0096, and Ga11G2490 in four representative cotton accessions. The relative expression levels of those five genes were further verified by qRT-PCR.

CONCLUSIONS

The significant SNPs, candidate genes identified in this study are expected to lay a foundation for studying the molecular mechanism for early biomass development and related traits in Asian cotton.

摘要

背景

在研究植物生长发育或逆境胁迫时，常将幼苗期植株生物量作为辅助性状。然而，在棉花中，与幼苗生物量相关的性状很少有分子标记和候选基因被发现。

结果

本研究收集了 215 份亚洲棉种质资源，调查了 11 个幼苗生物量相关性状，包括鲜重、干重、含水量和根冠比。利用 1425003 个高质量 SNPs 进行全基因组关联研究（GWAS），鉴定到 83 个显著关联和 69 个潜在候选基因。此外，候选基因的转录组谱强调了在四个有代表性的棉花品种中 Ga03G1298、Ga09G2054、Ga10G1342、Ga11G0096 和 Ga11G2490 的更高表达。通过 qRT-PCR 进一步验证了这 5 个基因的相对表达水平。

结论

本研究中鉴定到的显著 SNP 和候选基因，有望为研究亚洲棉早期生物量发育及相关性状的分子机制奠定基础。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/7f72bb808555/12870_2022_3443_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/f496c4631ac8/12870_2022_3443_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/849a588b27e0/12870_2022_3443_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/d56d61bc3876/12870_2022_3443_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/6c01151fbc42/12870_2022_3443_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/313d1cd2a2f3/12870_2022_3443_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/f61fc6535325/12870_2022_3443_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/7f72bb808555/12870_2022_3443_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/f496c4631ac8/12870_2022_3443_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/849a588b27e0/12870_2022_3443_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/d56d61bc3876/12870_2022_3443_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/6c01151fbc42/12870_2022_3443_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/313d1cd2a2f3/12870_2022_3443_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/f61fc6535325/12870_2022_3443_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e44c/8793229/7f72bb808555/12870_2022_3443_Fig7_HTML.jpg

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