The complete chloroplast genome of <i>Juniperus squamata</i> (Cupressaceae), a shrubby conifer from Asian Mountains

Xie, Siyu; Li, Jialiang; Miao, Jinbai; Xu, Jingjing; Mao, Kangshan

doi:10.1080/23802359.2019.1623105

Cited by 3 publications

(4 citation statements)

References 12 publications

(15 reference statements)

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“…The size of the pt genomes of these seven species was within the expected range (127-128 Kb) of other sequenced pt genomes of Juniperus members [46,47,49]. The GC content ranged from 34.36% to 34.98% (Table 2); the same value has been observed in other Juniperus pt genomes, including those of J. cedrus, J. tibetica, J. squamata, J. chinensis, J. gaussenii, J. pingii, and J. procumbens [44,45,48,54]. Despite the strong similarity of these seven pt genomes, several highly divergent regions, including accD, clpP-infA, matK, matK-ndhA, ycf1, ycf2, and ycf3, were identified.…”

Section: Discussionsupporting

confidence: 73%

“…pingii , and J . procumbens [ 44 , 45 , 48 , 54 ]. Despite the strong similarity of these seven pt genomes, several highly divergent regions, including accD , clpP-infA , matK , matK-ndhA , ycf1 , ycf2 , and ycf3 , were identified.…”

Section: Discussionmentioning

confidence: 99%

“…Recently, promising steps have been accomplished in the characterization of the complete pt genomes of Juniperus species from China [44][45][46][47][48][49][50], Pakistan [51], and Kazakhstan [52,53]. A complete pt genome comparison of four Juniperus species from China has been published [54].…”

Section: Introductionmentioning

confidence: 99%

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Comparative analysis of chloroplast genomes of seven Juniperus species from Kazakhstan

Almerekova,

Yermagambetova,

Jumanov

et al. 2024

PLoS ONE

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Juniperus species are shrubs or trees in the family Cupressaceae that play an important role in forest ecosystems. In this study, we report the complete sequences of the plastid (pt) genomes of five Juniperus species collected in Kazakhstan (J. communis, J. sibirica, J. pseudosabina, J. semiglobosa, and J. davurica). The sequences of the pt genomes of the five species were annotated in addition to two full pt genome sequences from J. sabina and J. seravschanica, which we have previously reported. The pt genome sequences of these seven species were compared to the pt genomes of Juniperus species available in the public NCBI database. The total length of the pt genomes of Juniperus species, including previously published pt genome data, ranged from 127,469 bp (J. semiglobosa) to 128,097 bp (J. communis). Each Juniperus plastome consisted of 119 genes, including 82 protein-coding genes, 33 transfer RNA and 4 ribosomal RNA genes. Among the identified genes, 16 contained one or two introns, and 2 tRNA genes were duplicated. A comparative assessment of pt genome sequences suggested the identification of 1145 simple sequence repeat markers. A phylogenetic tree of 26 Juniperus species based on the 82 protein-coding genes separated the Juniperus samples into two major clades, corresponding to the Juniperus and Sabina sections. The analysis of pt genome sequences indicated that accD and ycf2 were the two most polymorphic genes. The phylogenetic evaluation of 26 Juniperus species using these two genes confirmed that they can be efficiently used as DNA barcodes for phylogenetic analyses in the genus. The sequenced plastomes of these Juniperus species have provided a large amount of genetic data that will be valuable for future genomic studies of this genus.

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Section: Discussionsupporting

confidence: 73%

Section: Discussionmentioning

confidence: 99%

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Comparative analysis of chloroplast genomes of seven Juniperus species from Kazakhstan

Almerekova,

Yermagambetova,

Jumanov

et al. 2024

PLoS ONE

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“…Like some other conifers (Xie et al. 2019 ; Zhang et al. 2019 ), the chloroplast genome of K. fortunei did not show a stable tetrad structure for having no typical inverted repeat (IR) regions.…”

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confidence: 87%

The complete chloroplast genome sequence of Keteleeria fortunei (Pinaceae)

Zhang

et al. 2019

Mitochondrial DNA Part B

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Here, the complete chloroplast genome of Keteleeria fortunei, a vulnerable species in China, was sequenced by next-generation sequencing platform. Its circular genome was 117,183 bp in length and the GC content was 38.5%. A total of 101 genes were annotated, including 4 rRNA genes, 20 tRNA genes, and 71 protein coding genes. This study would further our understanding of the genomics and the conservation and utilization of K. fortunei.

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Genome-wide RAD sequencing resolves the evolutionary history of serrate leaf Juniperus and reveals discordance with chloroplast phylogeny

Uckele

Adams

Schwarzbach

2021

Molecular Phylogenetics and Evolution

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The complete chloroplast genome of Juniperus squamata (Cupressaceae), a shrubby conifer from Asian Mountains

Cited by 3 publications

References 12 publications

Comparative analysis of chloroplast genomes of seven Juniperus species from Kazakhstan

Comparative analysis of chloroplast genomes of seven Juniperus species from Kazakhstan

The complete chloroplast genome sequence of Keteleeria fortunei (Pinaceae)

Genome-wide RAD sequencing resolves the evolutionary history of serrate leaf Juniperus and reveals discordance with chloroplast phylogeny

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