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适应干旱的蝗虫的基因组大小估计与全长转录组:遗传背景

Genome Size Estimation and Full-Length Transcriptome of : Genetic Background of a Drought-Adapted Grasshopper.

作者信息

Zhao Lu, Wang Hang, Li Ping, Sun Kuo, Guan De-Long, Xu Sheng-Quan

机构信息

College of Life Sciences, Shaanxi Normal University, Xi'an, China.

出版信息

Front Genet. 2021 Jul 12;12:678625. doi: 10.3389/fgene.2021.678625. eCollection 2021.

Abstract

Fieber, 1852 (Orthoptera: Acrididae), is a grasshopper genus comprising approximately 170 species, all of which prefer dry environments such as deserts, steppes, and stony benchlands. In this study, we aimed to examine the adaptation of grasshopper species to arid environments. The genome size of was estimated using flow cytometry, and the first high-quality full-length transcriptome of this species was produced. The genome size of is approximately 12.8 Gb. Based on 146.98 Gb of PacBio sequencing data, 221.47 Mb full-length transcripts were assembled. Among these, 88,693 non-redundant isoforms were identified with an N50 value of 2,726 bp, which was markedly longer than previous grasshopper transcriptome assemblies. In total, 48,502 protein-coding sequences were identified, and 37,569 were annotated using public gene function databases. Moreover, 36,488 simple tandem repeats, 12,765 long non-coding RNAs, and 414 transcription factors were identified. According to gene functions, 61 cytochrome P450 (CYP450) and 66 heat shock protein (HSP) genes, which may be associated with drought adaptation of , were identified. We compared the transcriptomes of and two other grasshopper species which were less tolerant to drought, namely and . We observed the expression of CYP450 and HSP genes in were higher. We produced the first full-length transcriptome of a species that has an ultra-large genome. The assembly characteristics were better than those of all known grasshopper transcriptomes. This full-length transcriptome may thus be used to understand the genetic background and evolution of grasshoppers.

摘要

菲贝尔蝗属(Fieber,1852年)(直翅目:蝗科)是一个蝗虫属,包含约170个物种,所有这些物种都偏好干旱环境,如沙漠、草原和石质阶地。在本研究中,我们旨在研究蝗虫物种对干旱环境的适应性。使用流式细胞术估计了该蝗虫的基因组大小,并产生了该物种的首个高质量全长转录组。该蝗虫的基因组大小约为12.8Gb。基于146.98Gb的PacBio测序数据,组装了221.47Mb的全长转录本。其中,鉴定出88,693个非冗余异构体,N50值为2,726bp,明显长于先前的蝗虫转录组组装结果。总共鉴定出48,502个蛋白质编码序列,其中37,569个使用公共基因功能数据库进行了注释。此外,还鉴定出36,488个简单串联重复序列、12,765个长链非编码RNA和414个转录因子。根据基因功能,鉴定出61个细胞色素P450(CYP450)基因和66个热休克蛋白(HSP)基因,它们可能与该蝗虫的干旱适应性有关。我们比较了该蝗虫与另外两种耐旱性较差的蝗虫物种,即[物种名1]和[物种名2]的转录组。我们观察到该蝗虫中CYP450和HSP基因的表达较高。我们产生了具有超大基因组的该蝗虫物种的首个全长转录组。其组装特征优于所有已知的蝗虫转录组。因此,这个全长转录组可用于了解蝗虫的遗传背景和进化。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1b89/8313316/a3a1edb0c4ae/fgene-12-678625-g001.jpg

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