Transcriptome analysis of colored calla lily (Zantedeschia rehmannii Engl.) by Illumina sequencing: de novo assembly, annotation and EST-SSR marker development.
Transcriptome analysis of colored calla lily (Zantedeschia rehmannii Engl.) by Illumina sequencing: de novo assembly, annotation and EST-SSR marker development.
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通过 Illumina 测序对彩色马蹄莲 (Zantedeschia rehmannii Engl.) 进行转录组分析：从头组装、注释和 EST-SSR 标记开发
作者：
Wei Z;Sun Z;Cui B;Zhang Q;Xiong M;Wang X;Zhou D
彩色马蹄莲是马蹄莲属(Zantedeschia)Astivae组的种或杂交种的简称。由于其美丽的花苞和长寿的采后寿命，它目前是世界上最受欢迎的花卉之一。然而，可用于遗传改良的基因组信息很少，分子标记也很少。在这里，进行从头转录组测序以产生Rehmannii Z.rehmannii cv的大转录本序列。使用Illumina HiSeq 2000仪器的Rehmannii。获得了超过5990万个序列读数，组装成39,298个非基因组，平均长度为1,038个碱基对。其中，21,077个非基因片段与非冗余蛋白质数据库(Nr)、瑞士Prot、基因本体论(GO)、同源类群(COG)和京都基因与基因组百科全书(KEGG)数据库中的蛋白质序列有显著的相似性。此外，共有117个独特的转录本被确定为可能调节有色马蹄莲花苞发育的基因。此外，9933个简单序列重复(SSRs)和7162个单核苷酸多态(SNPs)被确定为可能的分子标记。设计并筛选出了200个SSR基因座的高质量引物，其中58个扩增产物在21份彩色马蹄莲材料中表现出多态现象。本研究提供的序列信息和分子标记将为马蹄莲属植物的遗传多样性分析、种质鉴定和分子标记辅助选择提供有价值的资源。
Colored calla lily is the short name for the species or hybrids in section Aestivae of genus Zantedeschia. It is currently one of the most popular flower plants in the world due to its beautiful flower spathe and long postharvest life. However, little genomic information and few molecular markers are available for its genetic improvement. Here, de novo transcriptome sequencing was performed to produce large transcript sequences for Z. rehmannii cv. ‘Rehmannii’ using an Illumina HiSeq 2000 instrument. More than 59.9 million cDNA sequence reads were obtained and assembled into 39,298 unigenes with an average length of 1,038 bp. Among these, 21,077 unigenes showed significant similarity to protein sequences in the non-redundant protein database (Nr) and in the Swiss-Prot, Gene Ontology (GO), Cluster of Orthologous Group (COG) and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases. Moreover, a total of 117 unique transcripts were then defined that might regulate the flower spathe development of colored calla lily. Additionally, 9,933 simple sequence repeats (SSRs) and 7,162 single nucleotide polymorphisms (SNPs) were identified as putative molecular markers. High-quality primers for 200 SSR loci were designed and selected, of which 58 amplified reproducible amplicons were polymorphic among 21 accessions of colored calla lily. The sequence information and molecular markers in the present study will provide valuable resources for genetic diversity analysis, germplasm characterization and marker-assisted selection in the genus Zantedeschia.
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影响因子：
3.7
作者：
Li Z;Wang J;Zhang X;Xu L
通讯作者：
Xu L
影响因子：
4.6
作者：
Onda Y;Mochida K;Yoshida T;Sakurai T;Seymour RS;Umekawa Y;Pirintsos SA;Shinozaki K;Ito K
通讯作者：
Ito K
影响因子：
3.7
作者：
Diao Y;Yang C;Yan M;Zheng X;Jin S;Wang Y;Hu Z
通讯作者：
Hu Z
影响因子：
4.4
作者：
Parchman TL;Geist KS;Grahnen JA;Benkman CW;Buerkle CA
通讯作者：
Buerkle CA
影响因子：
14.9
作者：
Tatusov, RL;Galperin, MY;Koonin, EV
通讯作者：
Koonin, EV