Журнал протеомики и биоинформатики
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ISSN: 0974-276X
ISSN: 0974-276X
Zhiqiang Wu, Cuihua Gu, Luke R Tembrock and Song Ge
Plastids, originated from cyanobacteria through endosymbiosis, contain their own DNA genome (plastome), and are uniparentally inherited in most of plant species. In this study, we reported the complete plastome sequence of Manchurian wild rice (Zizania latifolia) obtained by traditional Sanger sequencing and compared it with the previously published plastome of North America wild rice (Z. aquatica) from the same genus. The plastome of Z. latifolia has a total sequence length of 136,461 bp exhibiting a typical circular structure including a pair of 20,878 bp inverted repeats (IRa, b) separated by a large single-copy region (LSC) of 82,115 bp and a small single-copy region (SSC) of 12,590 bp, and it is only 97 bp longer than North America wild rice. The gene content, order, and orientation are similar to all other grass species. Four junctions in two plastome structures are exactly the same between the Zizania species. From complete genome comparisons, 744 (568, 46 and 130 for LSC, IR and SSC) substitutions are found between the two Zizania plastomes including 267 from coding regions and 477 from non-coding regions. Insertions/deletions (Indels) are mainly found in non-coding regions (136) except the only one repeat indel from coding regions in rpoC2 gene. The most informative biomarkers (rps16-trnQ, ndhF and matK) are also the most divergent between the two Zizania species. The completed plastome and comparative analyses from these two Zizania species would be as important resource for further systematic or population genetic studies in the Zizaniinae subtribe, marker assisted breeding, and plastomic transformation.