Identification of Centromere-Specific Repeats in the Zebra Finch Genome

IF 1.7 4区生物学 Q4 CELL BIOLOGY

Cytogenetic and Genome Research Pub Date : 2022-03-11 DOI:10.1159/000521716

Olga Takki, A. Komissarov, M. Kulak, S. Galkina

引用次数: 0

Abstract

Tandem repetitive sequences represent a significant part of many genomes but remain poorly characterized due to various methodological difficulties. Here, we describe the tandem repeat composition in the genome of zebra finch, Taeniopygia guttata, a species that has long served as an animal model, primarily in neurobiology and comparative genomics. Using available genome sequencing raw read datasets, we bioinformatically reconstructed consensus sequences of several tandem repeats and proved that the most abundant ones, Tgut191A and Tgut716A, are centromere-associated in chromosomes. Each centromeric region can have a different number of copies of each repeat, with Tgut716A enrichment in almost all microchromosomes and sex chromosomes. Sequences similar to Tgut191A and Tgut716A found in other Estrildidae and Viduidae species can be considered as candidate centromeric sequences, but this requires further cytogenetic verification.

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斑马芬奇基因组中着丝粒特异性重复序列的鉴定

串联重复序列代表了许多基因组的重要组成部分，但由于各种方法上的困难，其特征仍然很差。在这里，我们描述了斑胸带颈雀基因组中的串联重复组成，该物种长期以来一直是动物模型，主要用于神经生物学和比较基因组学。使用可用的基因组测序原始读取数据集，我们生物信息学地重建了几个串联重复序列的一致序列，并证明了最丰富的Tgut191A和Tgut716A是染色体中的着丝粒相关序列。每个着丝粒区域的每个重复序列可以有不同数量的拷贝，Tgut716A在几乎所有的微染色体和性染色体中富集。类似于在其他雌蛛科和Viduidae物种中发现的Tgut191A和Tgut716A的序列可以被认为是候选着丝粒序列，但这需要进一步的细胞遗传学验证。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Cytogenetic and Genome Research 生物-细胞生物学

CiteScore

3.10

自引率

5.90%

发文量

审稿时长

1 months

期刊介绍： During the last decades, ''Cytogenetic and Genome Research'' has been the leading forum for original reports and reviews in human and animal cytogenetics, including molecular, clinical and comparative cytogenetics. In recent years, most of its papers have centered on genome research, including gene cloning and sequencing, gene mapping, gene regulation and expression, cancer genetics, comparative genetics, gene linkage and related areas. The journal also publishes key papers on chromosome aberrations in somatic, meiotic and malignant cells. Its scope has expanded to include studies on invertebrate and plant cytogenetics and genomics. Also featured are the vast majority of the reports of the International Workshops on Human Chromosome Mapping, the reports of international human and animal chromosome nomenclature committees, and proceedings of the American and European cytogenetic conferences and other events. In addition to regular issues, the journal has been publishing since 2002 a series of topical issues on a broad variety of themes from cytogenetic and genome research.