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Author:
Date:
2013-11-20
[Abstract] Medicago truncatula serves as a model plant for legume genetics and genomics. We used RNA-Seq to characterize the transcriptome during the early organogenesis of the nodule and during its functioning. We generated approximately 135.5 million high-quality 36-bp reads, which were then aligned with the M. truncatula genome sequence (Mt3.0 version) and with sequences from a custom splice-junction database, for the detection of transcribed regions and splicing sites. Mapping and analysis of the reads conducted to the detection of 37,333 expressed transcription units (TUs), 1,670 had never been described before and were functionally annotated. We identified 7,595 new transcribed regions, mostly corresponding to 5’ and 3’ UTR extensions and new exons associated with 5,264 ...
[摘要] Medic属truncatula 是豆科植物遗传学和基因组学的模型植物。我们使用RNA Seq表征转录组在结节的早期器官发生期间和其功能期间。我们产生了大约135.5百万高质量的36-bp读数，然后与M比对。 truncatula基因组序列（Mt3.0版本）和来自定制剪接结数据库的序列，用于检测转录区和剪接位点。对进行到37,333个表达的转录单位（TU）的检测的读取的映射和分析，1,670以前从未被描述过并且被功能性注释。我们确定7,595新转录区，大部分对应于5'和3'UTR扩展和新的外显子与5,264以前注释的基因相关联。我们还通过进行Cufflinks分析以确定各种可变剪接形式的频率来评估结瘤转录组中的复杂性。因此，我们确定23,164不同转录物来自6,587基因。最后，我们进行了差异表达分析，其提供了在结瘤期间转录重编程的全面视图。
所有Illumina序列数据已被保存在NCBI短读档案中，Sanger测序PCR产物已被保藏GenBank（SRA048731）。长于200bp的装配的重叠群已经保藏在TSA（JR366937-JR375780）。覆盖率数据可在 http://ddlab.sci.univr.it/cgi -bin/gbrowse/medicago/ ...
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