Complete Chloroplast Genome Sequence of Holoparasite Cistanche deserticola (Orobanchaceae) Reveals Gene Loss and Horizontal Gene Transfer from Its Host Haloxylon ammodendron (Chenopodiaceae)

Xi Li; Ti-Cao Zhang; Qin Qiao; Zhumei Ren; Jiayuan Zhao; Takahiro Yonezawa; Masami Hasegawa; M. James C Crabbe; Jianqiang Li; Yang Zhong

doi:10.1371/journal.pone.0058747

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Research Article

Complete Chloroplast Genome Sequence of Holoparasite Cistanche deserticola (Orobanchaceae) Reveals Gene Loss and Horizontal Gene Transfer from Its Host Haloxylon ammodendron (Chenopodiaceae)

Xi Li ,

Contributed equally to this work with: Xi Li, Ti-Cao Zhang

Affiliation Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, China
⨯
Ti-Cao Zhang ,

Contributed equally to this work with: Xi Li, Ti-Cao Zhang

Affiliation Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, China
⨯
Qin Qiao,

Affiliation Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, China
⨯
Zhumei Ren,

Affiliation College of Life Science and Technology, Shanxi University, Taiyuan, China
⨯
Jiayuan Zhao,

Affiliation Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, China
⨯
Takahiro Yonezawa,

Affiliation Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, China
⨯
Masami Hasegawa,

Affiliation Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, China
⨯
M. James C Crabbe,

Affiliation Faculty of Creative Arts, Technologies and Science, Institute of Biomedical, Environmental Science and Technology, University of Bedfordshire, Luton, United Kingdom
⨯
Jianqiang Li ,

* E-mail: jianqiangl@hotmail.com (JL); yangzhong@fudan.edu.cn (YZ)

Affiliation Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, China
⨯
Yang Zhong

* E-mail: jianqiangl@hotmail.com (JL); yangzhong@fudan.edu.cn (YZ)

Affiliations Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, China, Institute of Biodiversity Science and Geobiology, Tibet University, Lhasa, China
⨯

Complete Chloroplast Genome Sequence of Holoparasite Cistanche deserticola (Orobanchaceae) Reveals Gene Loss and Horizontal Gene Transfer from Its Host Haloxylon ammodendron (Chenopodiaceae)

Xi Li,
Ti-Cao Zhang,
Qin Qiao,
Zhumei Ren,
Jiayuan Zhao,
Takahiro Yonezawa,
Masami Hasegawa,
M. James C Crabbe,
Jianqiang Li,
Yang Zhong

Published: March 15, 2013
https://doi.org/10.1371/journal.pone.0058747

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accD is intact, possibly ycf1 too.

Posted by khwolfe on 08 Apr 2013 at 13:41 GMT

There is an intact accD gene in this genome, contrary to what the text says. Its coordinates are complement(69308..67620) making a protein of 562 amino acids.
The reported ycf1 pseudogene is intact except for 1 frameshift, and I wonder if that is a sequencing error.
ycf15 is not a real gene in any plastid genome.

Ken Wolfe

No competing interests declared.

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Complete Chloroplast Genome Sequence of Holoparasite Cistanche deserticola (Orobanchaceae) Reveals Gene Loss and Horizontal Gene Transfer from Its Host Haloxylon ammodendron (Chenopodiaceae)

Complete Chloroplast Genome Sequence of Holoparasite Cistanche deserticola (Orobanchaceae) Reveals Gene Loss and Horizontal Gene Transfer from Its Host Haloxylon ammodendron (Chenopodiaceae)

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accD is intact, possibly ycf1 too.

Posted by khwolfe on 08 Apr 2013 at 13:41 GMT