Identification and characterization of three ICRd repetitive elements in Gossypium D genome

[en] The activity of genome-specific repetitive sequences is the main cause of genome variation between Gossypium A and D genomes. Through comparative analysis of the two genomes, we retrieved a repetitive element termed ICRd motif, which appears frequently in the diploid Gossypium raimondii (D5) genome but rarely in the diploid Gossypium arboreum (A2) genome. We further explored the existence of the ICRd motif in chromosomes of G. raimondii, G. arboreum, and two tetraploid (AADD) cotton species, Gossypium hirsutum and Gossypium barbadense, by fluorescence in situ hybridization (FISH), and observed that the ICRd motif exists in the D5 and D-subgenomes but not in the A2 and A-subgenomes. The ICRd motif comprises two components, a variable tandem repeat (TR) region and a conservative sequence (CS). The two constituents each have hundreds of repeats that evenly distribute across 13 chromosomes of the D5 genome. The ICRd motif (and its repeats) was revealed as the common conservative region harbored by ancient Long Terminal Repeat Retrotransposons. Identification and investigation of the ICRd motif promotes the study of A and D genome differences, facilitates research on Gossypium genome evolution, and provides assistance to subgenome identification and genome assembling.

Disciplines :

Agriculture & agronomy

Author, co-author :

Lu, Hejun ; Université de Liège - ULiège > Terra

Cui, Xinglei

Zhao, Yanyan

Odongo Magwanga, Richard

Li, Pengcheng

Cai, Xiaoyan

Zhou, Zhongli

Wang, Xingxing

Liu, Yuling

Xu, Yanchao

More authors (12 more)

Language :

English

Title :

Identification and characterization of three ICRd repetitive elements in Gossypium D genome

Publication date :

2020

Journal title :

PeerJ

eISSN :

2167-8359

Publisher :

PeerJ, United States - California

Peer reviewed :

Peer Reviewed verified by ORBi

Available on ORBi :

since 12 December 2019

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66 (12 by ULiège)

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