The complete plastid genomes ofBetaphycus gelatinus,Eucheuma denticulatum, andKappaphycus striatus(Solieriaceae: Rhodophyta) and their phylogenetic analysis
文献类型： 外文期刊
作者： Zhang, Jing 1 ; Liu, Na 2 ; Meinita, Maria Dyah Nur 5 ; Wang, Xumin 6 ; Tang, Xianming 7 ; Wang, Guoliang 8 ; Jin, Yue 1 ;
作者机构： 1.Qilu Univ Technol, Sch Bioengn, Shandong Acad Sci, 3501 Daxue Rd, Jinan 250353, Shandong, Peoples R China
2.Ocean Univ China, Coll Marine Life Sci, 5 Yushan Rd, Qingdao 266003, Shandong, Peoples R China
3.Beijing Normal Univ, Coll Life Sci, 19 Xinjiekouwai Rd, Beijing 100875, Peoples R China
4.Natl Inst Biol Sci, 7 Kexueyuan Rd, Beijing 102206, Peoples R China
5.Jenderal Soedirman Univ, Fisheries & Marine Sci, Purwokerto 53122, Indonesia
6.Yantai Univ, Coll Life Sci, 30 Qingshan Rd, Yantai 264005, Shandong, Peoples R China
7.Hainan Acad Ocean & Fisheries Sci, 54 Haifu Rd, Haikou 570203, Hainan, Peoples R China
8.Beijing Acad Agr & Forestry Sci, 11 Shuguanghuayuan Rd, Beijing 100097, Peoples R China
关键词： Rhodophyta; Co-linear analysis; Comparative analysis; Phylogenetic analysis; Plastid genome; Solieriaceae
期刊名称：JOURNAL OF APPLIED PHYCOLOGY （ 影响因子：3.215； 五年影响因子：3.612 ）
ISSN： 0921-8971
年卷期： 2020 年 32 卷 5 期
页码：
收录情况： SCI
摘要： Betaphycus,EucheumaandKappaphycus(Gigartinales, Florideophyceae) are the most commercially important genera of the family Solieriaceae that produce carrageenan. Here, three complete plastid genomes ofBetaphycus gelatinus,Eucheuma denticulatumandKappaphycus striatuswere fully sequenced using next-generation sequencing technology. Genome organizations and gene contents of the three plastid genomes were highly alike. They all had circular mapping organizations and the sizes were 178,394 bp (B. gelatinus), 177,003 bp (E. denticulatum), and 176,763 bp (K. striatus). They encoded almost the same set of plastid genes (238-240), including 202 to 204 protein-encoding genes, 30 transfer RNA genes (tRNAs), 3 ribosomal RNA genes (rRNAs), 2 misc_RNAs (ffs,rnpB), and 1 transfer-messenger RNA gene (tmRNA). One group II intron interrupting thetrnMe gene was identified in each of these three plastid genomes. Other three plastid genomes from species of the order Gigartinales includingKappaphycus alvarezii,Chondrus crispusandMastocarpus papillatushave been reported. The plastid genome organization at the level of the order Gigartinales was highly conserved. Co-linear analysis among the six plastid genomes of the Gigartinales showed the considerable sequence synteny with the exception of one remarkable gene rearrangement. The approximately 12.5-kb gene fragment from genepsaM toycf21 in plastid genomes of the four species of the Solieriaceae was completely reversed compared to that ofM. papillatusandC. crispus. It might be used as the potential phylogenetic markers uniting the species of the Solieriaceae. In addition, phylogenetic analysis based on 138 shared protein-encoding genes from 53 Florideophyceae plastid genomes indicated all species were clearly divided into five clades corresponding to their subclasses. The results suggested there was a non-monophyletic relationship of the order Gigartinales. Four species of the family Solieriaceae formed one clade andE. denticulatumwas basal relative to the other three species. The novel plastid genomes expand the available plastid pool for red algae which would facilitate the phylogenetic study in algae.
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