Heterogeneous evolution of Ty3-gypsy retroelements among bamboo species.
Heterogeneous evolution of Ty3-gypsy retroelements among bamboo species.
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DOI：
10.4238/gmr.15038515
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发表时间：
2016-08
期刊：
影响因子：
--
通讯作者：
An Mm;C. Guo;Lin Pp;Zhou Mb
中科院分区：
文献类型：
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作者：
An Mm;C. Guo;Lin Pp;Zhou Mb
Ty 3-gypsy长末端重复逆转录元件广泛存在于许多植物基因组中。本研究报道了4种代表性竹种Phyllostachys heterocyola（卡尔.）米特福德湾pubescens、杂环假单胞菌P. heterocyla（卡尔）米特福德湾heterocycla、绿竹（Dendrocalamopsis oldhami）和苦竹（Pleioblastus fortunei）。使用对应于Ty 3-gypsy逆转录元件的逆转录酶（rt）基因的保守结构域的简并寡核苷酸引物，从基因组DNA中扩增出165个不同的序列。核苷酸序列的长度从366到438 bp不等。序列显示高度异质性，同源性范围为52.2%至99.8%。构建了包括拟南芥和水稻的系统发育树。Bamboo Ty 3-gypsy序列形成了三个不同的retroelement集群（gypsy I-III）。进一步的分析表明，不仅有几乎相同的Ty 3-吉普赛retroelements中发现的远亲物种，但也高度多样的Ty 3-吉普赛retroelements中观察到的密切相关的物种。本研究的结果提供了有关竹子基因组的遗传和进化信息，可能有助于进一步研究竹子以及其他物种中的重复元件。
Ty3-gypsy long-terminal repeat retroelements are ubiquitously found in many plant genomes. This study reports the occurrence of heterogeneous Ty3-gypsy retroelements in four representative bamboo species: Phyllostachys heterocycla (Carr.) Mitford cv. pubescens, P. heterocycla (Carr.) Mitford cv. heterocycla, Dendrocalamopsis oldhami, and Pleioblastus fortunei. Using degenerate oligonucleotide primers corresponding to the conserved domains of reverse transcriptase (rt) genes of Ty3-gypsy retroelements, 165 distinct sequences were amplified from genomic DNA. The length of the nucleotide sequences varied from 366 to 438 bp. The sequences demonstrated a high heterogeneity, with homology ranging from 52.2 to 99.8%. A phylogenetic tree was constructed, including Arabidopsis thaliana and Oryza sativa. Bamboo Ty3-gypsy sequences formed three distinct retroelement clusters (gypsy I-III). Further analysis indicated that there were not only nearly identical Ty3-gypsy retroelements found in distantly related species, but also highly diverse Ty3-gypsy retroelements observed in closely related species. The results of this study provide genetic and evolutionary information about the bamboo genome that could contribute to further studies of repetitive elements in bamboo as well as in other species.