Transcriptome analysis of the oil-rich tea plant, Camellia oleifera, reveals candidate genes related to lipid metabolism.
Transcriptome analysis of the oil-rich tea plant, Camellia oleifera, reveals candidate genes related to lipid metabolism.
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DOI：
10.1371/journal.pone.0104150
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发表时间：
2014
期刊：
影响因子：
3.7
通讯作者：
Gao LZ
中科院分区：
文献类型：
--
作者：
Xia EH;Jiang JJ;Huang H;Zhang LP;Zhang HB;Gao LZ
由于需要开发具有营养重要性的脂肪酸的可持续来源以及对使用化石油后环境影响的日益关注，油料植物如今已得到越来越多的关注。油茶是我国重要的油料作物，在营养、生物燃料和化工原料等方面发挥着重要作用。然而，缺乏C。油茶基因组序列和很少的遗传信息在很大程度上阻碍了有效利用丰富的种质资源进行这种木本油料植物的现代育种努力的迫切需要。在这里，使用454 GS-FLX测序平台，我们从四种C.油橄榄这些读段被修剪并组装成104，842个非冗余的推定转录物，总长度为1038.9 Mb，是所有C. oleifera序列目前存放在GenBank中（截至2014年3月）。基于BLAST相似性检索，近42.6%的转录本可以用已知基因、保守结构域或基因本体（GO）术语进行注释。与栽培茶树C. sinensis中，鉴定了3，022对直系同源物，其中211对表现出正选择的证据。通路分析检测到大多数基因可能与脂质代谢。对20种油料作物的ω-6脂肪酸去饱和酶（FAD 2）基因的进化分析意外地表明，C. oleifera和Olea oleifera。此外，在C.油橄榄转录组所产生的转录组代表了公共数据库中存储的序列数量的相当大的增加，为发现与C.油橄榄这将极大地促进新品种的产生。提高了产量和质量。
Rapidly driven by the need for developing sustainable sources of nutritionally important fatty acids and the rising concerns about environmental impacts after using fossil oil, oil-plants have received increasing awareness nowadays. As an important oil-rich plant in China, Camellia oleifera has played a vital role in providing nutritional applications, biofuel productions and chemical feedstocks. However, the lack of C. oleifera genome sequences and little genetic information have largely hampered the urgent needs for efficient utilization of the abundant germplasms towards modern breeding efforts of this woody oil-plant. Here, using the 454 GS-FLX sequencing platform, we generated approximately 600,000 RNA-Seq reads from four tissues of C. oleifera. These reads were trimmed and assembled into 104,842 non-redundant putative transcripts with a total length of ∼38.9 Mb, representing more than 218-fold of all the C. oleifera sequences currently deposited in the GenBank (as of March 2014). Based on the BLAST similarity searches, nearly 42.6% transcripts could be annotated with known genes, conserved domains, or Gene Ontology (GO) terms. Comparisons with the cultivated tea tree, C. sinensis, identified 3,022 pairs of orthologs, of which 211 exhibited the evidence under positive selection. Pathway analysis detected the majority of genes potentially related to lipid metabolism. Evolutionary analysis of omega-6 fatty acid desaturase (FAD2) genes among 20 oil-plants unexpectedly suggests that a parallel evolution may occur between C. oleifera and Olea oleifera. Additionally, more than 2,300 simple sequence repeats (SSRs) and 20,200 single-nucleotide polymorphisms (SNPs) were detected in the C. oleifera transcriptome. The generated transcriptome represents a considerable increase in the number of sequences deposited in the public databases, providing an unprecedented opportunity to discover all related-genes associated with lipid metabolic pathway in C. oleifera. It will greatly enhance the generation of new varieties of C. oleifera with increased yields and high quality.
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DOI：
10.1111/j.1471-8286.2006.01500.x
发表时间：
2006-12-01
期刊：
MOLECULAR ECOLOGY NOTES
影响因子：
--
作者：
Kong, Q.;Xiang, C.;Yu, Z.
通讯作者：
Yu, Z.
通过454转录组测序发现SNP。
影响因子：
7.2
作者：
Barbazuk, W Brad;Emrich, Scott J;Chen, Hsin D;Li, Li;Schnable, Patrick S
通讯作者：
Schnable, Patrick S
影响因子：
5.8
作者：
Larkin, M. A.;Blackshields, G.;Higgins, D. G.
通讯作者：
Higgins, D. G.
影响因子：
14.9
作者：
Finn RD;Mistry J;Tate J;Coggill P;Heger A;Pollington JE;Gavin OL;Gunasekaran P;Ceric G;Forslund K;Holm L;Sonnhammer EL;Eddy SR;Bateman A
通讯作者：
Bateman A
影响因子：
14.9
作者：
Chenna, R;Sugawara, H;Thompson, JD
通讯作者：
Thompson, JD