Transcriptome Analysis of the Chrysanthemum Foliar Nematode, Aphelenchoides ritzemabosi (Aphelenchida: Aphelenchoididae).
Transcriptome Analysis of the Chrysanthemum Foliar Nematode, Aphelenchoides ritzemabosi (Aphelenchida: Aphelenchoididae).
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DOI：
10.1371/journal.pone.0166877
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发表时间：
2016
期刊：
影响因子：
3.7
通讯作者：
Li Y
中科院分区：
文献类型：
--
作者：
Xiang Y;Wang DW;Li JY;Xie H;Xu CL;Li Y
菊花叶线虫(Aphelenchoides Ritzemabosi)是一种寄生植物线虫，危害多种植物。在本研究中，在Illumina HiSeq 2000平台上对CFN混合阶段种群的转录本进行了测序。获得了6810万个Illumina高质量的成对末端阅读，产生了26,817个转录本，平均长度为1,032个碱基对，N50为1,672个碱基对，其中16,467个转录本根据6个数据库进行了注释。总共预测了20311个编码区序列(CDS)、495个简单序列重复(SSR)和8353个单核苷酸多态(SNPs)。与四种植物寄生线虫的CFN序列比较，共有16846条(62.82%)的常见转录本和10543条(39.31%)的CFN转录本与之匹配。共有111个CFN转录本被预测为具有植物/真菌细胞壁降解活性的7种碳水化合物活性酶(CAZymes)的同源物，预测的植物细胞壁降解酶的同源物比真菌细胞壁降解酶的转录本要少。CFN与其他生物的GH5、GH16、GH43和GH45蛋白的系统发育分析表明，CFN与其他线虫具有较近的系统发育关系。在CFN转录组中，预测了线虫RNAi途径中涉及的7类蛋白家族的16种基因同源基因。本研究在转录水平上提供了全面的基因表达信息，这将有助于阐明CFN的分子机制和基因功能在宏观水平上的分布，可能揭示控制CFN的改进方法。
The chrysanthemum foliar nematode (CFN), Aphelenchoides ritzemabosi, is a plant parasitic nematode that attacks many plants. In this study, a transcriptomes of mixed-stage population of CFN was sequenced on the Illumina HiSeq 2000 platform. 68.10 million Illumina high quality paired end reads were obtained which generated 26,817 transcripts with a mean length of 1,032 bp and an N50 of 1,672 bp, of which 16,467 transcripts were annotated against six databases. In total, 20,311 coding region sequences (CDS), 495 simple sequence repeats (SSRs) and 8,353 single-nucleotide polymorphisms (SNPs) were predicted, respectively. The CFN with the most shared sequences was B. xylophilus with 16,846 (62.82%) common transcripts and 10,543 (39.31%) CFN transcripts matched sequences of all of four plant parasitic nematodes compared. A total of 111 CFN transcripts were predicted as homologues of 7 types of carbohydrate-active enzymes (CAZymes) with plant/fungal cell wall-degrading activities, fewer transcripts were predicted as homologues of plant cell wall-degrading enzymes than fungal cell wall-degrading enzymes. The phylogenetic analysis of GH5, GH16, GH43 and GH45 proteins between CFN and other organisms showed CFN and other nematodes have a closer phylogenetic relationship. In the CFN transcriptome, sixteen types of genes orthologues with seven classes of protein families involved in the RNAi pathway in C. elegans were predicted. This research provides comprehensive gene expression information at the transcriptional level, which will facilitate the elucidation of the molecular mechanisms of CFN and the distribution of gene functions at the macro level, potentially revealing improved methods for controlling CFN.
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影响因子：
1.2
作者：
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通讯作者：
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影响因子：
3.3
作者：
Eves-van den Akker S;Lilley CJ;Danchin EG;Rancurel C;Cock PJ;Urwin PE;Jones JT
通讯作者：
Jones JT
影响因子：
3.5
作者：
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通讯作者：
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