Gurjar Malkhan Singh, Aggarwal Rashmi, Jogawat Abhimanyu, Kulshreshtha Deepika, Sharma Sapna, Solanke Amolkumar U, Dubey Himanshu, Jain Rakesh Kumar
1Fungal Molecular Biology Laboratory, Division of Plant Pathology, ICAR-Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110012 India.
2ICAR-National Research Centre on Plant Biotechnology, Pusa Campus, New Delhi, 110012 India.
3 Biotech. 2019 Jun;9(6):219. doi: 10.1007/s13205-019-1743-3. Epub 2019 May 20.
is an internationally quarantined fungal pathogen causing Karnal bunt of wheat. The present study carried out that the whole genome of was sequenced and identified transposable elements, pathogenicity-related genes using a comparative genomics approach. The . genome assembly size of 33.7 MB was generated using Illumina and Pac Bio platforms with GC content of 55.0%. A total of 1737 scaffolds were obtained with N of 58,667 bp. The ab initio gene prediction was performed using as the reference species. A total number of 10,113 genes were predicted with an average gene size of 1945 bp out of which functionally annotated genes were 7262. A total number of 3216 protein-coding genes were assigned in different categories. Out of a total number of 1877 transposable elements, gypsy had the highest count (573). Total 5772 simple sequence repeats were identified in the genome assembly, and the most abundant simple sequence repeat type was trinucleotide having 42% of total SSRs. The comparative genome analysis suggested 3751 proteins of . had orthologs in five fungi, whereas 126 proteins were unique to . . Secretome analysis revealed the presence of 1014 secretory proteins and few carbohydrate-active enzymes in the genome. Some putative candidate pathogenicity-related genes were identified in the genome. The whole genome of . will provide a window to understand the pathogenesis mechanism, fungal life cycle, survival of teliospores, and novel strategies for management of Karnal bunt disease of wheat.
是一种引起小麦印度腥黑穗病的国际检疫性真菌病原体。本研究对其全基因组进行了测序，并采用比较基因组学方法鉴定了转座元件和致病相关基因。使用Illumina和Pac Bio平台生成了基因组组装大小为33.7MB、GC含量为55.0%的该病原体基因组。共获得1737个支架，N值为58,667bp。以[参考物种名称]为参考物种进行从头基因预测。共预测出10,113个基因，平均基因大小为1945bp，其中功能注释基因有7262个。共有3216个蛋白质编码基因被分类。在总共1877个转座元件中，gypsy元件数量最多（573个）。在基因组组装中总共鉴定出5772个简单序列重复，最丰富的简单序列重复类型是三核苷酸，占总简单序列重复的42%。比较基因组分析表明，该病原体的3751个蛋白质在五种真菌中有直系同源物，而126个蛋白质是该病原体特有的。分泌组分析揭示基因组中存在1014个分泌蛋白和少量碳水化合物活性酶。在基因组中鉴定出一些假定的候选致病相关基因。该病原体的全基因组将为理解小麦印度腥黑穗病的致病机制、真菌生命周期、冬孢子存活以及新的防治策略提供一个窗口。
