A pan-transcriptome analysis shows that disease resistance genes have undergone more selection pressure during barley domestication
文献类型： 外文期刊
作者： Ma, Yanling 1 ; Liu, Miao 1 ; Stiller, Jiri 1 ; Liu, Chunji 1 ;
作者机构： 1.CSIRO Agr & Food, 306 Carmody Rd, St Lucia, Qld 4067, Australia
2.Sichuan Acad Agr Sci, Crop Res Inst, Chengdu 610066, Peoples R China
关键词： Barley; Pan-transcriptome; Novel transcripts; Wild; Cultivated; Resistance
期刊名称：BMC GENOMICS （ 影响因子：3.969； 五年影响因子：4.478 ）
ISSN： 1471-2164
年卷期： 2019 年 20 卷
页码：
收录情况： SCI
摘要： BackgroundIt has become clear in recent years that many genes in a given species may not be found in a single genotype thus using sequences from a single genotype as reference may not be adequate for various applications.ResultsIn this study we constructed a pan-transcriptome for barley by de novo assembling 288 sets of RNA-seq data from 32 cultivated barley genotypes and 31 wild barley genotypes. The pan-transcriptome consists of 756,632 transcripts with an average N50 length of 1240bp. Of these, 289,697 (38.2%) were not found in the genome of the international reference genotype Morex. The novel transcripts are enriched with genes associated with responses to different stresses and stimuli. At the pan-transcriptome level, genotypes of wild barley have a higher proportion of disease resistance genes than cultivated ones.ConclusionsWe demonstrate that the use of the pan-transcriptome dramatically improved the efficiency in detecting variation in barley. Analysing the pan-transcriptome also found that, compared with those in other categories, disease resistance genes have gone through stronger selective pressures during domestication.
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