Transcriptomic characterization and potential marker development of contrasting sugarcane cultivars.
Transcriptomic characterization and potential marker development of contrasting sugarcane cultivars.
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对比甘蔗品种的转录组表征和潜在标记开发
DOI：
10.1038/s41598-018-19832-x
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发表时间：
2018-01-26
影响因子：
4.6
通讯作者：
Zhang M
中科院分区：
文献类型：
--
作者：
Xu S;Wang J;Shang H;Huang Y;Yao W;Chen B;Zhang M
甘蔗（Saccharum officinarumL.）是世界范围内重要的制糖和生物能源作物。在这项研究中，我们对6种不同的甘蔗基因型进行了转录组测序，这些基因型与叶片脱落、对麻花病的耐受性和干旱胁迫有关。产生了超过4.65亿个高质量的reads，这些reads被重新组装成93115个unigenes。基于相似性搜索，在至少一个公共数据库中标注了43,526个（46.74%）unigenes。功能分类分析表明，这些独特基因参与了广泛的代谢途径。比较转录组分析显示，易脱落基因型中与脱落酸和乙烯相关的许多基因上调，而耐受性基因型中与茉莉酸和水杨酸相关的基因在白桦病基因型中上调。此外，耐干旱基因型中与过氧化物酶、抗氧化活性和信号转导相关的基因在干旱胁迫下表达上调。最后，我们确定了一些假定的标记，包括8,630个简单序列重复（SSRs）和442,152个单核苷酸多态性（SNPs）。这些数据将为今后甘蔗基因发现、分子标记开发和基因组研究提供重要资源。
Sugarcane (Saccharum officinarumL.) is an important crop for sugar production and bioenergy worldwide. In this study, we performed transcriptome sequencing for six contrasting sugarcane genotypes involved in leaf abscission, tolerance to pokkah boeng disease and drought stress. More than 465 million high-quality reads were generated, which werede novoassembled into 93,115 unigenes. Based on a similarity search, 43,526 (46.74%) unigenes were annotated against at least one of the public databases. Functional classification analyses showed that these unigenes are involved in a wide range of metabolic pathways. Comparative transcriptome analysis revealed that many unigenes involved in response to abscisic acid and ethylene were up-regulated in the easy leaf abscission genotype, and unigenes associated with response to jasmonic acid and salicylic acid were up-regulated in response to the pokkah boeng disease in the tolerance genotype. Moreover, unigenes related to peroxidase, antioxidant activity and signal transduction were up-regulated in response to drought stress in the tolerant genotype. Finally, we identified a number of putative markers, including 8,630 simple sequence repeats (SSRs) and 442,152 single-nucleotide polymorphisms (SNPs). Our data will be important resources for future gene discovery, molecular marker development, and genome studies in sugarcane.
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影响因子：
3.7
作者：
Cardoso-Silva CB;Costa EA;Mancini MC;Balsalobre TW;Canesin LE;Pinto LR;Carneiro MS;Garcia AA;de Souza AP;Vicentini R
通讯作者：
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6.2
作者：
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影响因子：
1.9
作者：
Huang, Dong-Liang;Gao, Yi-Jing;Li, Yang-Rui
通讯作者：
Li, Yang-Rui
影响因子：
4.2
作者：
Deschamps, Stephane;la Rota, Mauricio;Campbell, Matthew A.
通讯作者：
Campbell, Matthew A.