Retention of an apparently functional plastome in an apparently mycoheterotrophic orchid, Dipodium roseum D.L.Jones & M.A.Clem. (Orchidaceae)

New species of Tulasnella associated with Australian terrestrial orchids in the subtribes Megastylidinae and Thelymitrinae

(2022) Arild R. Arifin et al.   MYCOLOGIA

Continental-scale distribution and diversity of Ceratobasidium orchid mycorrhizal fungi in Australia

(2021) Marc W Freestone et al.   ANNALS OF BOTANY

Plastome data provide insights into intra and interspecific diversity and ndh gene loss in Capparis (Capparaceae)

(2020) SATISH MAURYA et al.   Phytotaxa

Plastome Evolution and Phylogeny of Orchidaceae, With 24 New Sequences

(2020) Young-Kee Kim et al.   Frontiers in Plant Science

Degradation of key photosynthetic genes in the critically endangered semi-aquatic flowering plant Saniculiphyllum guangxiense (Saxifragaceae)

(2020) Ryan A. Folk et al.   BMC PLANT BIOLOGY

Unprecedented parallel photosynthetic losses in a heterotrophic orchid genus

(2019) Craig F Barrett et al.   MOLECULAR BIOLOGY AND EVOLUTION

Mycoheterotrophic Epirixanthes (Polygalaceae) has a typical angiosperm mitogenome but unorthodox plastid genomes

(2019) G Petersen et al.   ANNALS OF BOTANY

Thirteen New Plastid Genomes from Mixotrophic and Autotrophic Species Provide Insights into Heterotrophy Evolution in Neottieae Orchids

(2019) Félix Lallemand et al.   Genome Biology and Evolution

Plastome reduction in the only parasitic gymnosperm Parasitaxus is due to losses of photosynthesis but not housekeeping genes and apparently involves the secondary gain of a large inverted repeat

(2019) Xiao-Jian Qu et al.   Genome Biology and Evolution

Comparative study of nutritional mode and mycorrhizal fungi in green and albino variants of Goodyera velutina , an orchid mainly utilizing saprotrophic rhizoctonia

(2019) Kenji Suetsugu et al.   MOLECULAR ECOLOGY

Rhopalocnemis phalloides has one of the most reduced and mutated plastid genomes known

(2019) Mikhail I. Schelkunov et al.   PeerJ

Plastome of mycoheterotrophic Burmannia itoana Mak. (Burmanniaceae) exhibits extensive degradation and distinct rearrangements

(2019) Xiaojuan Li et al.   PeerJ

Gene loss and genome rearrangement in the plastids of five Hemiparasites in the family Orobanchaceae

(2018) Daniel C. Frailey et al.   BMC PLANT BIOLOGY

Plastid genome degradation in the endangered, mycoheterotrophic, North American orchid Hexalectris warnockii

(2018) Craig F Barrett et al.   Genome Biology and Evolution

Dense infraspecific sampling reveals rapid and independent trajectories of plastome degradation in a heterotrophic orchid complex

(2018) Craig F. Barrett et al.   NEW PHYTOLOGIST

Comparative genomic analysis of Genlisea (corkscrew plants—Lentibulariaceae) chloroplast genomes reveals an increasing loss of the ndh genes

(2018) Saura R. Silva et al.   PLoS One

Chloroplast variation is incongruent with classification of the Australian bloodwood eucalypts (genus Corymbia, family Myrtaceae)

(2018) Tanja M. Schuster et al.   PLoS One

Molecular systematics and the evolution of mycoheterotrophy of tribe Neottieae (Orchidaceae, Epidendroideae)

(2018) Ting Zhou et al.   PhytoKeys

Punctuated plastome reduction and host–parasite horizontal gene transfer in the holoparasitic plant genus Aphyllon

(2018) Adam C. Schneider et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Evaluating multilocus Bayesian species delimitation for discovery of cryptic mycorrhizal diversity

(2017) Michael R. Whitehead et al.   Fungal Ecology

Plastomes on the edge: the evolutionary breakdown of mycoheterotroph plastid genomes

(2017) Sean W. Graham et al.   NEW PHYTOLOGIST

Concomitant loss of NDH complex-related genes within chloroplast and nuclear genomes in some orchids

(2017) Choun-Sea Lin et al.   PLANT JOURNAL

Independent degradation in genes of the plastid ndh gene family in species of the orchid genus Cymbidium (Orchidaceae; Epidendroideae)

(2017) Hyoung Tae Kim et al.   PLoS One

A few-gene plastid phylogenetic framework for mycoheterotrophic monocots

(2016) Vivienne K.Y. Lam et al.   AMERICAN JOURNAL OF BOTANY

Understanding the evolution of holoparasitic plants: the complete plastid genome of the holoparasiteCytinus hypocistis(Cytinaceae)

(2016) Cristina Roquet et al.   ANNALS OF BOTANY

Detecting and Characterizing the Highly Divergent Plastid Genome of the Nonphotosynthetic Parasitic PlantHydnora visseri(Hydnoraceae)

(2016) Julia Naumann et al.   Genome Biology and Evolution

Lineage-Specific Reductions of Plastid Genomes in an Orchid Tribe with Partially and Fully Mycoheterotrophic Species

(2016) Yan-Lei Feng et al.   Genome Biology and Evolution

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Subtribal relationships in Cymbidieae (Epidendroideae, Orchidaceae) reveal a new subtribe, Dipodiinae, based on plastid and nuclear coding DNA

(2016) Ming-He Li et al.   Phytotaxa

The complete chloroplast genome of parasitic flowering plant Monotropa hypopitys: extensive gene losses and size reduction

(2016) Eugene V. Gruzdev et al.   Mitochondrial DNA Part B-Resources

The complete chloroplast genome of hemiparasitic flowering plant Schoepfia jasminodora

(2016) Huei-Jiun Su et al.   Mitochondrial DNA Part B-Resources

The Chloroplast Genome of Utricularia reniformis Sheds Light on the Evolution of the ndh Gene Complex of Terrestrial Carnivorous Plants from the Lentibulariaceae Family

(2016) Saura R. Silva et al.   PLoS One

Exceptional reduction of the plastid genome of saguaro cactus (Carnegiea gigantea): Loss of the ndh gene suite and inverted repeat

(2015) M. J. Sanderson et al.   AMERICAN JOURNAL OF BOTANY

Phylogenetic relationships in Epidendroideae (Orchidaceae), one of the great flowering plant radiations: progressive specialization and diversification

(2015) John V. Freudenstein et al.   ANNALS OF BOTANY

Alternative translation initiation codons for the plastid maturase MatK: unraveling the pseudogene misconception in the Orchidaceae

(2015) Michelle M. Barthet et al.   BMC EVOLUTIONARY BIOLOGY

NDH expression marks major transitions in plant evolution and reveals coordinate intracellular gene loss

(2015) Tracey A Ruhlman et al.   BMC PLANT BIOLOGY

The Plastomes of Two Species in the Endoparasite GenusPilostyles(Apodanthaceae) Each Retain Just Five or Six Possibly Functional Genes

(2015) Sidonie Bellot et al.   Genome Biology and Evolution

Plastome Evolution in Hemiparasitic Mistletoes

(2015) Gitte Petersen et al.   Genome Biology and Evolution

The Highly Reduced Plastome of MycoheterotrophicSciaphila(Triuridaceae) Is Colinear with Its Green Relatives and Is under Strong Purifying Selection

(2015) Vivienne K.Y. Lam et al.   Genome Biology and Evolution

Exploring the Limits for Reduction of Plastid Genomes: A Case Study of the Mycoheterotrophic Orchids Epipogium aphyllum and Epipogium roseum

(2015) Mikhail I. Schelkunov et al.   Genome Biology and Evolution

Massive intracellular gene transfer during plastid genome reduction in nongreen Orobanchaceae

(2015) Natalie Cusimano et al.   NEW PHYTOLOGIST

Plastid genomes reveal support for deep phylogenetic relationships and extensive rate variation among palms and other commelinid monocots

(2015) Craig F. Barrett et al.   NEW PHYTOLOGIST

Phylogenetic Inferences and the Evolution of Plastid DNA in Campynemataceae and the Mycoheterotrophic Corsia dispar D.L Jones & B. Gray (Corsiaceae)

(2015) Sarah Silvia Bodin et al.   PLANT MOLECULAR BIOLOGY REPORTER

Seven New Complete Plastome Sequences Reveal Rampant Independent Loss of the ndh Gene Family across Orchids and Associated Instability of the Inverted Repeat/Small Single-Copy Region Boundaries

(2015) Hyoung Tae Kim et al.   PLoS One

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

The Plastid Genome of Mycoheterotrophic Monocot Petrosavia stellaris Exhibits Both Gene Losses and Multiple Rearrangements

(2014) Maria D. Logacheva et al.   Genome Biology and Evolution

Investigating the Path of Plastid Genome Degradation in an Early-Transitional Clade of Heterotrophic Orchids, and Implications for Heterotrophic Angiosperms

(2014) Craig F. Barrett et al.   MOLECULAR BIOLOGY AND EVOLUTION

Possible Loss of the Chloroplast Genome in the Parasitic Flowering Plant Rafflesia lagascae (Rafflesiaceae)

(2014) Jeanmaire Molina et al.   MOLECULAR BIOLOGY AND EVOLUTION

RELAX: Detecting Relaxed Selection in a Phylogenetic Framework

(2014) Joel O. Wertheim et al.   MOLECULAR BIOLOGY AND EVOLUTION

Nutritional regulation in mixotrophic plants: new insights from Limodorum abortivum

(2014) Alessandro Bellino et al.   OECOLOGIA

Complete chloroplast genome of the genus Cymbidium: lights into the species identification, phylogenetic implications and population genetic analyses

(2013) Jun-Bo Yang et al.   BMC EVOLUTIONARY BIOLOGY

Plastid genome evolution across the genus Cuscuta (Convolvulaceae): two clades within subgenus Grammica exhibit extensive gene loss

(2013) Thomas Braukmann et al.   JOURNAL OF EXPERIMENTAL BOTANY

Reconstruction of the Ancestral Plastid Genome in Geraniaceae Reveals a Correlation between Genome Rearrangements, Repeats, and Nucleotide Substitution Rates

(2013) Mao-Lun Weng et al.   MOLECULAR BIOLOGY AND EVOLUTION

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

(2013) Xi Li et al.   PLoS One

The Plastid Genome of Najas flexilis: Adaptation to Submersed Environments Is Accompanied by the Complete Loss of the NDH Complex in an Aquatic Angiosperm

(2013) Elena L. Peredo et al.   PLoS One

Shifts in mycorrhizal fungi during the evolution of autotrophy to mycoheterotrophy in Cymbidium (Orchidaceae)

(2012) Y. Ogura-Tsujita et al.   AMERICAN JOURNAL OF BOTANY

The plastid genome of the mycoheterotrophic Corallorhiza striata (Orchidaceae) is in the relatively early stages of degradation

(2012) Craig F. Barrett et al.   AMERICAN JOURNAL OF BOTANY

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

(2012) M. Kearse et al.   BIOINFORMATICS

Transcriptomes of the Parasitic Plant Family Orobanchaceae Reveal Surprising Conservation of Chlorophyll Synthesis

(2011) Norman J. Wickett et al.   CURRENT BIOLOGY

Sequencing and Analysis of Plastid Genome in Mycoheterotrophic Orchid Neottia nidus-avis

(2011) Maria D. Logacheva et al.   Genome Biology and Evolution

Rampant Gene Loss in the Underground Orchid Rhizanthella gardneri Highlights Evolutionary Constraints on Plastid Genomes

(2011) E. Delannoy et al.   MOLECULAR BIOLOGY AND EVOLUTION

Mixotrophy of Platanthera minor, an orchid associated with ectomycorrhiza-forming Ceratobasidiaceae fungi

(2011) Takahiro Yagame et al.   NEW PHYTOLOGIST

Recent loss of plastid-encoded ndh genes within Erodium (Geraniaceae)

(2011) J. Chris Blazier et al.   PLANT MOLECULAR BIOLOGY

The evolution of the plastid chromosome in land plants: gene content, gene order, gene function

(2011) Susann Wicke et al.   PLANT MOLECULAR BIOLOGY

Two micro-scale protocols for the isolation of DNA from polysaccharide-rich plant tissue

(2010) Lara D. Shepherd et al.   JOURNAL OF PLANT RESEARCH

Evolution of mycoheterotrophy in plants: a phylogenetic perspective

(2010) Vincent Merckx et al.   NEW PHYTOLOGIST

Loss of all plastid ndh genes in Gnetales and conifers: extent and evolutionary significance for the seed plant phylogeny

(2009) Thomas Werner Anthony Braukmann et al.   CURRENT GENETICS