Genome-Wide Comparative Analysis of the Phospholipase D Gene Families among Allotetraploid Cotton and Its Diploid Progenitors

doi:10.1371/journal.pone.0156281

	Genome-Wide Comparative Analysis of the Phospholipase D Gene Families among Allotetraploid Cotton and Its Diploid Progenitors
	Tang, Kai 1; Dong, Chun-Juan 2; Liu, Jin-Yuan 1
刊名	PLOS ONE
	2016
卷号	11 期号:5 页码:-
ISSN号	1932-6203
DOI	10.1371/journal.pone.0156281
通讯作者	Tang, Kai
英文摘要	In this study, 40 phospholipase D (PLD) genes were identified from allotetraploid cotton Gossypium hirsutum, and 20 PLD genes were examined in diploid cotton Gossypium raimondii. Combining with 19 previously identified Gossypium arboreum PLD genes, a comparative analysis was performed among the PLD gene families among allotetraploid and two diploid cottons. Based on the orthologous relationships, we found that almost each G. hirsutum PLD had a corresponding homolog in the G. arboreum and G. raimondii genomes, except for GhPLD beta 3A, whose homolog GaPLD beta 3 may have been lost during the evolution of G. arboreum after the interspecific hybridization. Phylogenetic analysis showed that all of the cotton PLDs were unevenly classified into six numbered subgroups: alpha, beta/gamma, delta, epsilon, zeta and phi. An N-terminal C2 domain was found in the alpha, beta/gamma, delta and epsilon subgroups, while phox homology (PX) and pleckstrin homology (PH) domains were identified in the zeta subgroup. The subgroup phi possessed a single peptide instead of a functional domain. In each phylogenetic subgroup, the PLDs showed high conservation in gene structure and amino acid sequences in functional domains. The expansion of GhPLD and GrPLD gene families were mainly attributed to segmental duplication and partly attributed to tandem duplication. Furthermore, purifying selection played a critical role in the evolution of PLD genes in cotton. Quantitative RT-PCR documented that allotetraploid cotton PLD genes were broadly expressed and each had a unique spatial and developmental expression pattern, indicating their functional diversification in cotton growth and development. Further analysis of cis-regulatory elements elucidated transcriptional regulations and potential functions. Our comparative analysis provided valuable information for understanding the putative functions of the PLD genes in cotton fiber.
学科主题	Multidisciplinary Sciences
语种	英语
出版者	PUBLIC LIBRARY SCIENCE
WOS记录号	WOS:000376880200071
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/100819]
专题	蔬菜花卉研究所_栽培与采后技术研究室
作者单位	1.Tsinghua Univ, Sch Life Sci, Ctr Plant Biol, Plant Mol Biol Lab, Beijing 100084, Peoples R China 2.Chinese Acad Agr Sci, Inst Vegetables & Flowers, Beijing 100193, Peoples R China
推荐引用方式 GB/T 7714	Tang, Kai,Dong, Chun-Juan,Liu, Jin-Yuan. Genome-Wide Comparative Analysis of the Phospholipase D Gene Families among Allotetraploid Cotton and Its Diploid Progenitors[J]. PLOS ONE,2016,11(5):-.
APA	Tang, Kai,Dong, Chun-Juan,&Liu, Jin-Yuan.(2016).Genome-Wide Comparative Analysis of the Phospholipase D Gene Families among Allotetraploid Cotton and Its Diploid Progenitors.PLOS ONE,11(5),-.
MLA	Tang, Kai,et al."Genome-Wide Comparative Analysis of the Phospholipase D Gene Families among Allotetraploid Cotton and Its Diploid Progenitors".PLOS ONE 11.5(2016):-.