Full-length RNA sequencing reveals unique transcriptome composition in bermudagrass.
Full-length RNA sequencing reveals unique transcriptome composition in bermudagrass.
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DOI：
10.1016/j.plaphy.2018.08.039
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发表时间：
2018-11
期刊：
影响因子：
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通讯作者：
Bing Zhang;Jianxiu Liu;Xiaoshan Wang;Zhenwu Wei
中科院分区：
文献类型：
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作者：
Bing Zhang;Jianxiu Liu;Xiaoshan Wang;Zhenwu Wei
狗牙根[Cynodon dactylon（L.）[2014年10月21日]是一种重要的多年生暖季型草坪草，具有很高的经济价值。然而，目前狗牙根的参考基因组和转录组信息仍然缺乏，这严重阻碍了其功能育种和分子育种研究。本研究通过对叶、匍匐茎、茎、根和花的混合样品进行单分子长读段测序分析，获得了首个狗牙根（C.鸭茅品种（Dactylontraditional Yangjiang）含78，192个单基因。在单一基因中，66，409个被功能注释，而27，946个被发现有两个或更多的同种型。这些注释的全长单基因为研究狗牙根基因序列特征和系统发育提供了新的视角。通过与9种禾本科植物的转录组数据集的比较，KEGG途径分析进一步揭示了C4光合作用相关基因，特别是磷酸烯醇式丙酮酸羧化酶和丙酮酸，磷酸二激酶基因，在狗牙根中特异性富集。这些结果不仅解释了狗牙根在温暖地区生长的可能原因，也为狗牙根这一重要草坪草的进一步研究奠定了基础。
Bermudagrass [Cynodon dactylon(L.) Pers.] is an important perennial warm-season turfgrass species with great economic value. However, the reference genome and transcriptome information are still deficient in bermudagrass, which severely impedes functional and molecular breeding studies. In this study, through analyzing a mixture sample of leaves, stolons, shoots, roots and flowers with single-molecule long-read sequencing technology from Pacific Biosciences (PacBio), we reported the first full-length transcriptome dataset of bermudagrass (C. dactyloncultivar Yangjiang) comprising 78,192 unigenes. Among the unigenes, 66,409 were functionally annotated, whereas 27,946 were found to have two or more isoforms. The annotated full-length unigenes provided many new insights into gene sequence characteristics and systematic phylogeny of bermudagrass. By comparison with transcriptome dataset in nine grass species, KEGG pathway analyses further revealed that C4photosynthesis-related genes, notably the phosphoenolpyruvate carboxylase and pyruvate, phosphate dikinase genes, are specifically enriched in bermudagrass. These results not only explained the possible reason why bermudagrass flourishes in warm areas but also provided a solid basis for future studies in this important turfgrass species.