TY - JOUR
T1 - The complete chloroplast genome sequence of Aster spathulifolius (Asteraceae); genomic features and relationship with Asteraceae
AU - Choi, Kyoung Su
AU - Park, Seon Joo
N1 - Publisher Copyright:
© 2015 Elsevier B.V..
PY - 2015/11/10
Y1 - 2015/11/10
N2 - Aster spathulifolius, a member of the Asteraceae family, is distributed along the coast of Japan and Korea. This plant is used for medicinal and ornamental purposes. The complete chloroplast (cp) genome of A. sphathulifolius consists of 149,473. bp that include a pair of inverted repeats of 24,751. bp separated by a large single copy region of 81,998. bp and a small single copy region of 17,973. bp. The chloroplast genome contains 78 coding genes, four rRNA genes and 29 tRNA genes. When compared to other cpDNA sequences of Asteraceae, A. spathulifolius showed the closest relationship with Jacobaea vulgaris, and its atpB gene was found to be a pseudogene, unlike J. vulgaris. Furthermore, evaluation of the gene compositions of J. vulgaris, Helianthus annuus, Guizotia abyssinica and A. spathulifolius revealed that 13.6-kb showed inversion from ndhF to rps15, unlike Lactuca of Asteraceae. Comparison of the synonymous (Ks) and nonsynonymous (Ka) substitution rates with J. vulgaris revealed that synonymous genes related to a small subunit of the ribosome showed the highest value (0.1558), while nonsynonymous rates of genes related to ATP synthase genes were highest (0.0118). These findings revealed that substitution has occurred at similar rates in most genes, and the substitution rates suggested that most genes is a purified selection.
AB - Aster spathulifolius, a member of the Asteraceae family, is distributed along the coast of Japan and Korea. This plant is used for medicinal and ornamental purposes. The complete chloroplast (cp) genome of A. sphathulifolius consists of 149,473. bp that include a pair of inverted repeats of 24,751. bp separated by a large single copy region of 81,998. bp and a small single copy region of 17,973. bp. The chloroplast genome contains 78 coding genes, four rRNA genes and 29 tRNA genes. When compared to other cpDNA sequences of Asteraceae, A. spathulifolius showed the closest relationship with Jacobaea vulgaris, and its atpB gene was found to be a pseudogene, unlike J. vulgaris. Furthermore, evaluation of the gene compositions of J. vulgaris, Helianthus annuus, Guizotia abyssinica and A. spathulifolius revealed that 13.6-kb showed inversion from ndhF to rps15, unlike Lactuca of Asteraceae. Comparison of the synonymous (Ks) and nonsynonymous (Ka) substitution rates with J. vulgaris revealed that synonymous genes related to a small subunit of the ribosome showed the highest value (0.1558), while nonsynonymous rates of genes related to ATP synthase genes were highest (0.0118). These findings revealed that substitution has occurred at similar rates in most genes, and the substitution rates suggested that most genes is a purified selection.
KW - Aster spathulifolius
KW - Chloroplast genome
KW - Nonsynonymous substitution
KW - Synonymous substitution
UR - https://www.scopus.com/pages/publications/84941600834
U2 - 10.1016/j.gene.2015.07.020
DO - 10.1016/j.gene.2015.07.020
M3 - Article
C2 - 26164759
AN - SCOPUS:84941600834
SN - 0378-1119
VL - 572
SP - 214
EP - 221
JO - Gene
JF - Gene
IS - 2
ER -