Chloroplast genomes: diversity, evolution, and applications in genetic engineering

H Daniell, CS Lin, M Yu, WJ Chang - Genome biology, 2016 - Springer
Chloroplasts play a crucial role in sustaining life on earth. The availability of over 800
sequenced chloroplast genomes from a variety of land plants has enhanced our …

Structural diversity among plastid genomes of land plants

JP Mower, TL Vickrey - Advances in botanical research, 2018 - Elsevier
The plastome of land plants is often considered to be highly conserved in sequence,
structure, and content. This is particularly true for nonvascular land plants, for which few …

Targeted base editing in the plastid genome of Arabidopsis thaliana

I Nakazato, M Okuno, H Yamamoto, Y Tamura, T Itoh… - Nature Plants, 2021 - nature.com
Bacterial cytidine deaminase fused to the DNA binding domains of transcription activator-
like effector nucleases was recently reported to transiently substitute a targeted C to a T in …

Complete chloroplast genomes provide insights into evolution and phylogeny of Zingiber (Zingiberaceae)

D Jiang, X Cai, M Gong, M **a, H **ng, S Dong, S Tian… - BMC genomics, 2023 - Springer
Abstract Background The genus Zingiber of the Zingiberaceae is distributed in tropical,
subtropical, and in Far East Asia. This genus contains about 100–150 species, with many …

The chloroplast genome evolution of Venus slipper (Paphiopedilum): IR expansion, SSC contraction, and highly rearranged SSC regions

YY Guo, JX Yang, MZ Bai, GQ Zhang, ZJ Liu - BMC Plant Biology, 2021 - Springer
Background Paphiopedilum is the largest genus of slipper orchids. Previous studies showed
that the phylogenetic relationships of this genus are not well resolved, and sparse taxon …

Plastid phylogenomic insights into the evolution of Caryophyllales

G Yao, JJ **, HT Li, JB Yang, VS Mandala… - Molecular Phylogenetics …, 2019 - Elsevier
The Caryophyllales includes 40 families and 12,500 species, representing a large and
diverse clade of angiosperms. Collectively, members of the clade grow on all continents and …

Backbone phylogeny and evolution of Apioideae (Apiaceae): New insights from phylogenomic analyses of plastome data

J Wen, DF **e, M Price, T Ren, YQ Deng, LJ Gui… - Molecular Phylogenetics …, 2021 - Elsevier
Traditional phylogenies inferred from chloroplast DNA fragments have not obtained a well‐
resolved evolutionary history for the backbone of Apioideae, the largest subfamily of …

MSH1 is required for maintenance of the low mutation rates in plant mitochondrial and plastid genomes

Z Wu, G Waneka, AK Broz, CR King… - Proceedings of the …, 2020 - National Acad Sciences
Mitochondrial and plastid genomes in land plants exhibit some of the slowest rates of
sequence evolution observed in any eukaryotic genome, suggesting an exceptional ability …

Comparative chloroplast genome analyses of Avena: insights into evolutionary dynamics and phylogeny

Q Liu, X Li, M Li, W Xu, T Schwarzacher… - BMC plant biology, 2020 - Springer
Abstract Background Oat (Avena sativa L.) is a recognized health-food, and the contributions
of its different candidate A-genome progenitor species remain inconclusive. Here, we report …

A Repertory of Rearrangements and the Loss of an Inverted Repeat Region in Passiflora Chloroplast Genomes

LA Cauz-Santos, ZP da Costa, C Callot… - Genome biology and …, 2020 - academic.oup.com
Chloroplast genomes (cpDNA) in angiosperms are usually highly conserved. Although
rearrangements have been observed in some lineages, such as Passiflora, the mechanisms …