scholarly journals Chloroplast Genome Evolution in Actinidiaceae: clpP Loss, Heterogenous Divergence and Phylogenomic Practice

PLoS ONE ◽  
2016 ◽  
Vol 11 (9) ◽  
pp. e0162324 ◽  
Author(s):  
Wen-Cai Wang ◽  
Si-Yun Chen ◽  
Xian-Zhi Zhang
Keyword(s):  
Chloroplast Genome ◽  
Genome Evolution ◽  
Chloroplast Genome Evolution

Chloroplast Genome Evolution in the Euglenaceae

2015 ◽  
Vol 62 (6) ◽  
pp. 773-785 ◽  
Author(s):  
Matthew S. Bennett ◽  
Richard E. Triemer
Keyword(s):  
Chloroplast Genome ◽  
Genome Evolution ◽  
Chloroplast Genome Evolution

scholarly journals Chloroplast Genome Evolution in Early Diverged Leptosporangiate Ferns

2014 ◽  
Vol 37 (5) ◽  
pp. 372-382 ◽  
Author(s):  
Hyoung Tae Kim ◽  
Myong Gi Chung ◽  
Ki-Joong Kim
Keyword(s):  
Chloroplast Genome ◽  
Genome Evolution ◽  
Chloroplast Genome Evolution

scholarly journals Comparative Chloroplast Genome Analyses of Ilex (Aquifoliaceae): Insights Into Evolutionary Dynamics and Phylogenetic Relationships

2021 ◽  
Author(s):  
Kewang Xu ◽  
Chenxue Lin ◽  
Shiou Yih Lee ◽  
Lingfeng Mao ◽  
Kaikai Meng
Keyword(s):  
Chloroplast Genome ◽  
Genome Evolution ◽  
Dna Barcoding ◽  
Phylogenetic Relationships ◽  
Evolutionary Dynamics ◽  
Genome Structure ◽  
Gc Content ◽  
Chloroplast Genome Evolution ◽  
Chloroplast Genomes ◽  
Mutational Hotspots

Abstract BackgroundDespite many species of Ilex (Aquifoliaceae) are of horticultural importance and are widely grown in parks and gardens throughout the world for their foliage and decorative berries, limited genetic information has greatly hampered our understanding of the chloroplast genome evolution and phylogenetic relationships within the genus. This study attempted to address these problems by comparing the chloroplast genomes and analyzing phylogenetic relationships within the genus.ResultsIn this study, analyses of chloroplast genome structure, codon usage, GC content, gene rearrangement, nucleotide diversity, inverted repeats (IR) boundary, repeat sequence, and SSR component were conducted by comparing 41 chloroplast genomes of Ilex. The results showed that these Ilex chloroplast genomes were evolutionary conserved at the genome level and no rearrangement of the complete cp genome in the 41 Ilex genomes was recorded. On the contrary, there were still a few mutational hotspots identified from these chloroplast genomes, which were considered as hypervariable regions useful for future phylogenetic studies and DNA barcoding. Using the complete chloroplast genome sequences, we reconstructed a highly supported phylogeny of Ilex and well-resolved the complicated relationships among the different lineages within Ilex.ConclusionThe present study increased our understanding of the chloroplast genome evolution and phylogenetic relationships within Ilex. The availability of these genetic resources will be helpful for the future studies in DNA barcoding, species delimitation, phylogenetic reconstruction as well as the hybridization and introgression events between distantly related lineages within Ilex.

scholarly journals Chloroplast genome evolution in the Dracunculus clade (Aroideae, Araceae)

Genomics ◽  
2021 ◽  
Vol 113 (1) ◽  
pp. 183-192
Author(s):  
Abdullah ◽  
Claudia L. Henriquez ◽  
Furrukh Mehmood ◽  
Amir Hayat ◽  
Abdul Sammad ◽  
...  
Keyword(s):  
Chloroplast Genome ◽  
Genome Evolution ◽  
Chloroplast Genome Evolution
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