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高度再生陆地棉系（Gossypium hirsutum L.）中非胚性和胚性愈伤组织细胞的转录组谱。

Transcriptomic profiles of non-embryogenic and embryogenic callus cells in a highly regenerative upland cotton line (Gossypium hirsutum L.).

机构信息

Department of Plant and Environmental Sciences, Clemson University, Clemson, SC, USA.

Department of Food and Biology Engineering, College of Food and Chemistry Engineering, Changsha University of Science and Technology, Changsha, Hunan, 410114, People's Republic of China.

出版信息

BMC Dev Biol. 2020 Dec 2;20(1):25. doi: 10.1186/s12861-020-00230-4.

DOI:10.1186/s12861-020-00230-4
PMID:33267776
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7713314/
Abstract

BACKGROUND

Genotype independent transformation and whole plant regeneration through somatic embryogenesis relies heavily on the intrinsic ability of a genotype to regenerate. The critical genetic architecture of non-embryogenic callus (NEC) cells and embryogenic callus (EC) cells in a highly regenerable cotton genotype is unknown.

RESULTS

In this study, gene expression profiles of a highly regenerable Gossypium hirsutum L. cultivar, Jin668, were analyzed at two critical developmental stages during somatic embryogenesis, non-embryogenic callus (NEC) cells and embryogenic callus (EC) cells. The rate of EC formation in Jin668 is 96%. Differential gene expression analysis revealed a total of 5333 differentially expressed genes (DEG) with 2534 genes upregulated and 2799 genes downregulated in EC. A total of 144 genes were unique to NEC cells and 174 genes were unique to EC. Clustering and enrichment analysis identified genes upregulated in EC that function as transcription factors/DNA binding, phytohormone response, oxidative reduction, and regulators of transcription; while genes categorized in methylation pathways were downregulated. Four key transcription factors were identified based on their sharp upregulation in EC tissue; LEAFY COTYLEDON 1 (LEC1), BABY BOOM (BBM), FUSCA (FUS3) and AGAMOUS-LIKE15 with distinguishable subgenome expression bias.

CONCLUSIONS

This comparative analysis of NEC and EC transcriptomes gives new insights into the genes involved in somatic embryogenesis in cotton.

摘要

背景

通过体细胞胚胎发生实现基因型独立转化和整株再生在很大程度上依赖于基因型的内在再生能力。在高度可再生棉花基因型中，非胚性愈伤组织（NEC）细胞和胚性愈伤组织（EC）细胞的关键遗传结构尚不清楚。

结果

在这项研究中，分析了高度可再生的陆地棉品种 Jin668 在体细胞胚胎发生的两个关键发育阶段（非胚性愈伤组织（NEC）细胞和胚性愈伤组织（EC）细胞）的基因表达谱。Jin668 中 EC 的形成率为 96%。差异基因表达分析显示，共鉴定出 5333 个差异表达基因（DEG），其中 2534 个基因上调，2799 个基因下调。NEC 细胞中共有 144 个基因特异表达，EC 中共有 174 个基因特异表达。聚类和富集分析鉴定出在 EC 中上调的基因，其功能为转录因子/DNA 结合、植物激素响应、氧化还原和转录调控；而分类在甲基化途径中的基因则下调。根据在 EC 组织中强烈上调的情况，确定了四个关键的转录因子；LEAFY COTYLEDON 1（LEC1）、BABY BOOM（BBM）、FUSCA（FUS3）和 AGAMOUS-LIKE15，它们具有可区分的亚基因组表达偏倚。

结论

对 NEC 和 EC 转录组的比较分析为棉花体细胞胚胎发生中涉及的基因提供了新的见解。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/bda437b3454f/12861_2020_230_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/7abebc001d08/12861_2020_230_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/0705219be3af/12861_2020_230_Fig2_HTML.jpg
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https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/66ae96789fc1/12861_2020_230_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/018943ba86bc/12861_2020_230_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/bda437b3454f/12861_2020_230_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/7abebc001d08/12861_2020_230_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/0705219be3af/12861_2020_230_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/81baa208a011/12861_2020_230_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/73987800528c/12861_2020_230_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/66ae96789fc1/12861_2020_230_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/018943ba86bc/12861_2020_230_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ce8c/7713314/bda437b3454f/12861_2020_230_Fig7_HTML.jpg

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