The location and translocation of ndh genes of chloroplast origin in the Orchidaceae family

Scientific Reports
Choun-Sea LinMing-Che Shih

Abstract

The NAD(P)H dehydrogenase complex is encoded by 11 ndh genes in plant chloroplast (cp) genomes. However, ndh genes are truncated or deleted in some autotrophic Epidendroideae orchid cp genomes. To determine the evolutionary timing of the gene deletions and the genomic locations of the various ndh genes in orchids, the cp genomes of Vanilla planifolia, Paphiopedilum armeniacum, Paphiopedilum niveum, Cypripedium formosanum, Habenaria longidenticulata, Goodyera fumata and Masdevallia picturata were sequenced; these genomes represent Vanilloideae, Cypripedioideae, Orchidoideae and Epidendroideae subfamilies. Four orchid cp genome sequences were found to contain a complete set of ndh genes. In other genomes, ndh deletions did not correlate to known taxonomic or evolutionary relationships and deletions occurred independently after the orchid family split into different subfamilies. In orchids lacking cp encoded ndh genes, non cp localized ndh sequences were identified. In Erycina pusilla, at least 10 truncated ndh gene fragments were found transferred to the mitochondrial (mt) genome. The phenomenon of orchid ndh transfer to the mt genome existed in ndh-deleted orchids and also in ndh containing species.

References

Oct 10, 1980·Nucleic Acids Research·M G Murray, W F Thompson
Oct 11, 1994·Proceedings of the National Academy of Sciences of the United States of America·T WakasugiM Sugiura
Jun 15, 1996·Nucleic Acids Research·P VeronicoL R Ceci
Aug 5, 1998·Proceedings of the National Academy of Sciences of the United States of America·T ShikanaiA Yokota
Nov 24, 1999·Trends in Plant Science·J MarienfeldA Brennicke
Sep 10, 2002·Proceedings of the National Academy of Sciences of the United States of America·William MartinDavid Penny
Sep 14, 2002·Annual Review of Plant Biology·Gilles Peltier, Laurent Cournac
Jan 22, 2004·Nature Reviews. Genetics·Jeremy N TimmisWilliam Martin
Jun 4, 2004·Nature·Yuri MunekageToshiharu Shikanai
Jun 8, 2004·Bioinformatics·Stacia K WymanJeffrey L Boore
Nov 16, 2004·Plant Physiology·Sandra W CliftonKathleen J Newton
Jul 5, 2007·Molecular Biology and Evolution·Daryi WangShu-Miaw Chaw
May 15, 2008·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Ralph Bock, Jeremy N Timmis
Jan 27, 2009·Annals of Botany·I J LeitchM F Fay
Oct 7, 2009·Proceedings of the National Academy of Sciences of the United States of America·Weilong Hao, Jeffrey D Palmer
May 25, 2010·Plant Physiology and Biochemistry : PPB·Mercedes Martín, Bartolomé Sabater
Jan 22, 2011·Molecular Biology and Evolution·Andrew H Lloyd, Jeremy N Timmis
Feb 18, 2011·Plant Molecular Biology·J Chris BlazierRobert K Jansen
Aug 2, 2011·Genome Biology and Evolution·David Roy Smith
Sep 10, 2011·Bioinformatics·Tanja Magoč, Steven L Salzberg
Feb 10, 2012·Molecular Biology and Evolution·Dong WangJeremy N Timmis
Aug 7, 2012·The Plant Journal : for Cell and Molecular Biology·Minoru UedaToshiharu Shikanai
Jan 15, 2013·Plant & Cell Physiology·Wen-Chieh TsaiHong-Hwa Chen
Jan 18, 2013·Plant & Cell Physiology·Chun-lin SuMing-Che Shih

❮ Previous
Next ❯

Citations

Sep 26, 2015·Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis·Shuying ZhuXiaoyu Ding
Sep 1, 2015·Genome Biology and Evolution·Gitte PetersenOle Seberg
Jun 25, 2016·Genome Biology·Henry DaniellWan-Jung Chang
Mar 5, 2017·The Plant Journal : for Cell and Molecular Biology·Choun-Sea LinMing-Che Shih
Jun 14, 2017·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Inkyu ParkByeong Cheol Moon
Mar 17, 2019·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Inkyu ParkByeong Cheol Moon
Sep 11, 2019·Molecular Biology and Evolution·Brandon T Sinn, Craig F Barrett
Jul 29, 2020·Frontiers in Plant Science·Michelle Zavala-PáezEric de Camargo Smidt
Feb 28, 2019·BMC Evolutionary Biology·Zhang-Hai LiXiao-Hua Jin
Mar 11, 2020·Frontiers in Plant Science·Young-Kee KimKi-Joong Kim
Mar 27, 2020·Frontiers in Plant Science·Oyetola OyebanjiTing-Shuang Yi
Oct 1, 2020·Genes·Tapan Kumar MohantaAhmed Al-Harrasi
Oct 22, 2020·PeerJ·Yanqiong ChenJunwen Zhai
Dec 23, 2020·Molecular Ecology Resources·Roberta GargiuloMichael F Fay
Dec 29, 2020·Mitochondrial DNA. Part B, Resources·Shan-Hu MaYe Ai
Sep 23, 2019·Mitochondrial DNA. Part B, Resources·Zhi-Cong HuangJie Huang
Oct 17, 2017·Mitochondrial DNA. Part B, Resources·Young-Kee KimKi-Joong Kim
Oct 14, 2017·Mitochondrial DNA. Part B, Resources·Young-Kee KimKi-Joong Kim
Jul 13, 2019·Mitochondrial DNA. Part B, Resources·Yong-Qiang ZhangGuo-Qiang Zhang
Dec 29, 2020·Mitochondrial DNA. Part B, Resources·Li-Jie ZhangHai-Hong Wu
Oct 18, 2017·Mitochondrial DNA. Part B, Resources·Young-Kee KimKi-Joong Kim
Sep 29, 2017·Mitochondrial DNA. Part B, Resources·Ali AmiryousefiPéter Poczai
Oct 14, 2017·Mitochondrial DNA. Part B, Resources·Young-Kee KimKi-Joong Kim

❮ Previous
Next ❯

Methods Mentioned

BETA
PCR
Illumina sequencing
DNA

Software Mentioned

TreeVector
FLASH
PhyML
BLAST
BLASTX
PowerPoint
Dual GenoMe Annotator ( DOGMA )
BLASTN
ClustalW2
Newbler

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.