Data from: Identifying differentially expressed genes under heat stress and developing molecular markers in orchardgrass (Dactylis glomerata L.) through transcriptome analysis

Orchardgrass (Dactylis glomerata L.) is a long-lived, cool-season forage grass that is commonly used for hay production. Despite its economic importance, orchardgrass genome remains relatively unexplored. In this study, we used Illumina RNA sequencing to identify gene-associated molecular markers, including simple sequence repeats (SSRs) and single nucleotide polymorphisms (SNPs), as well as heat stress-induced differentially expressed genes (DEGs) in two orchardgrass genotypes, 'Baoxing' (heat resistant) and '01998' (heat susceptible). Approximately 163 million high-quality trimmed reads were generated from 207 million raw reads using the Illumina HiSeq 2000 platform. A total of 126 846 unigenes were obtained after de novo assembly of the trimmed reads, and 40 078 unigenes were identified as coding sequences (CDSs). Based on the assembled unigenes, 669 300 high-quality SNPs, including 416 099 transitions and 257 736 transversions, were contained in 75 875 unigenes. In addition, a total of 8475 microsatellites were detected in 7764 unigenes. When placed under heat stress, the total number of DEGs in 'Baoxing' (3527) was higher than in '01998' (2649), indicating that in comparison with heat-susceptible '01998', heat-resistant 'Baoxing' seems to have more unigenes that respond to heat stress. The high-throughput transcriptome sequencing of orchardgrass under heat stress provides useful information for gene identification and for the development of SNP and SSR molecular markers. The comparison of DEGs under different periods of heat stress allowed us to identify a wealth of candidate DEGs that can be further analysed in order to determine the genetic mechanisms underlying heat tolerance in orchardgrass.

鸭茅草（Orchardgrass, Dactylis glomerata L.）是一种多年生冷季型饲草，广泛用于干草生产。尽管其经济价值显著，但鸭茅草的基因组研究仍相对匮乏。本研究采用Illumina RNA测序技术，对两个鸭茅草基因型——耐热品种‘宝兴’（'Baoxing'）与热敏感品种‘01998’（'01998'）——进行分析，鉴定得到基因关联分子标记，包括简单序列重复（simple sequence repeats, SSRs）、单核苷酸多态性（single nucleotide polymorphisms, SNPs），以及热胁迫诱导的差异表达基因（differentially expressed genes, DEGs）。本研究依托Illumina HiSeq 2000测序平台，从2.07亿条原始测序读段中获得约1.63亿条高质量过滤读段。经从头组装（de novo assembly）后，过滤读段共得到126,846个单基因簇（unigenes），其中40,078个被鉴定为编码序列（coding sequences, CDSs）。基于组装得到的单基因簇，在75,875个单基因簇中共鉴定出669,300个高质量单核苷酸多态性位点，包含416,099个转换位点与257,736个颠换位点。此外，在7,764个单基因簇中检测到8,475个微卫星位点。当暴露于热胁迫环境时，‘宝兴’的差异表达基因总数（3,527个）高于‘01998’（2,649个），这表明相较于热敏感品种‘01998’，耐热品种‘宝兴’拥有更多响应热胁迫的单基因簇。鸭茅草热胁迫下的高通量转录组测序结果，可为基因鉴定以及单核苷酸多态性、简单序列重复分子标记的开发提供重要参考信息。通过比较不同热胁迫时长下的差异表达基因，可鉴定得到大量候选差异表达基因，后续可对其开展深入分析，以揭示鸭茅草耐热性的潜在遗传机制。

搜集汇总

背景与挑战

背景概述

该数据集基于Illumina RNA测序技术，研究了两个果园草基因型在热胁迫下的差异表达基因和分子标记开发。它包含了126,846个单基因、669,300个高质量SNPs和8,475个微卫星，并发现耐热基因型'Baoxing'的差异表达基因数量更高，为果园草耐热机制研究和分子育种提供了关键数据支持。