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Complete Chloroplast Genome Sequence and Phylogenetic Analysis of Quercus bawanglingensis Huang, Li et Xing, a Vulnerable Oak Tree in China

机译:中国易受害橡树栎王旺栎叶绿体完整基因组序列及亲缘关系分析

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Quercus bawanglingensis Huang, Li et Xing, an endemic evergreen oak of the genus Quercus (Fagaceae) in China, is currently listed in the Red List of Chinese Plants as a vulnerable (VU) plant. No chloroplast (cp) genome information is currently available for Q. bawanglingensis , which would be essential for the establishment of guidelines for its conservation and breeding. In the present study, the cp genome of Q. bawanglingensis was sequenced and assembled into double-stranded circular DNA with a length of 161,394 bp. Two inverted repeats (IRs) with a total of 51,730 bp were identified, and the rest of the sequence was separated into two single-copy regions, namely, a large single-copy (LSC) region (90,628 bp) and a small single-copy (SSC) region (19,036 bp). The genome of Q. bawanglingensis contains 134 genes (86 protein-coding genes, 40 tRNAs and eight rRNAs). More forward (29) than inverted long repeats (21) are distributed in the cp genome. A simple sequence repeat (SSR) analysis showed that the genome contains 82 SSR loci, involving 84.15% A/T mononucleotides. Sequence comparisons among the nine complete cp genomes, including the genomes of Q. bawanglingensis , Q. tarokoensis Hayata (NC036370), Q. aliena var. acutiserrata Maxim. ex Wenz. (KU240009), Q. baronii Skan (KT963087), Q. aquifolioides Rehd. et Wils. (KX911971), Q. variabilis Bl. (KU240009), Fagus engleriana Seem. (KX852398), Lithocarpus balansae (Drake) A. Camus (KP299291) and Castanea mollissima Bl. (HQ336406), demonstrated that the diversity of SC regions was higher than that of IR regions, which might facilitate identification of the relationships within this extremely complex family. A phylogenetic analysis showed that Fagus engleriana and Trigonobalanus doichangensis form the basis of the produced evolutionary tree. Q. bawanglingensis and Q. tarokoensis , which belong to the group Ilex , share the closest relationship. The analysis of the cp genome of Q. bawanglingensis provides crucial genetic information for further studies of this vulnerable species and the taxonomy, phylogenetics and evolution of Quercus .
机译:栎王(Quercus bawanglingensis)黄,李等人,中国栎属(Fagaceae)的一种特有常绿橡树,目前被列为《中国植物红色名录》中的脆弱植物(VU)。目前尚无霸王灵芝的叶绿体(cp)基因组信息,这对于建立保护和育种指南至关重要。在本研究中,对霸王灵芝的cp基因组进行测序并组装成长度为161,394 bp的双链环状DNA。鉴定出两个总长度为51,730 bp的反向重复序列(IR),其余序列分为两个单拷贝区域,即一个大的单拷贝(LSC)区域(90,628 bp)和一个小的单拷贝区域。复制(SSC)区域(19,036 bp)。霸王灵芝的基因组包含134个基因(86个蛋白质编码基因,40个tRNA和8个rRNA)。比反向长重复序列(21)更向前(29)分布在cp基因组中。一个简单的序列重复(SSR)分析表明该基因组包含82个SSR基因座,涉及84.15%的A / T单核苷酸。在9个完整的cp基因组中的序列比较,包括q。bawanglingensis,q。tarokoensis Hayata(NC036370),q。Aliena var。 acutiserrata Maxim。前温兹。 (KU240009),Q.baronii Skan(KT963087),Q.aquifolioides Rehd。 et Wils。 (KX911971),Q.variabilis Bl。 (KU240009),Fagus engleriana Seem。 (KX852398),Li石科(Drake)A.Camus(KP299291)和栗木(Castanea mollissima Bl。 (HQ336406)证明,SC区的多样性高于IR区,这可能有助于识别这个极其复杂的家族中的关系。系统发育分析表明,姬松(Fabus engleriana)和杜鹃(Trigonobalanus doichangensis)构成了产生的进化树的基础。属于Ilex组的Q. bawanglingensis和Q. tarokoensis具有最密切的关系。霸王灵芝cp基因组的分析为进一步研究该脆弱物种以及栎的分类学,系统发育和进化提供了重要的遗传信息。

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