Comparative and phylogenetic analysis of Asparagus meioclados Levl. and Asparagus munitus Wang et S. C. Chen plastomes and utility of plastomes mutational hotspots
Abstract Tiandong is a vital traditional Chinese herbal medicine. It is derived from the tuber root of the Asparagus cochinchinensis according to the Pharmacopoeia of the people’s republic of China (2020 Edition). On account of the similar morphology, Asparagus meioclados and Asparagus munitus were...
Saved in:
Published in | Scientific reports Vol. 13; no. 1; p. 15622 |
---|---|
Main Authors | , , , , , |
Format | Journal Article |
Language | English |
Published |
London
Nature Publishing Group
20.09.2023
Nature Publishing Group UK Nature Portfolio |
Subjects | |
Online Access | Get full text |
Cover
Loading…
Summary: | Abstract
Tiandong is a vital traditional Chinese herbal medicine. It is derived from the tuber root of the
Asparagus cochinchinensis
according to the Pharmacopoeia of the people’s republic of China (2020 Edition). On account of the similar morphology,
Asparagus meioclados
and
Asparagus munitus
were used as Tian-Dong in southwest China. Chloroplast (cp) genomes are highly active genetic components of plants and play an extremely important role in improving the efficiency of the identification of plant species. To differentiate the medicinal plants belonging to the genus
Asparagus
, we sequenced and analyzed the complete plastomes (plastid genomes) of
A. meioclados
and
A. munitus
and obtained two plastomes whose length changed to 156,515 bp and 156,381 bp, respectively. A total of 111 unique genes have been detected in plastome, which included 78 protein-coding genes, 29 tRNA genes and 4 rRNA genes. In plastomes of
A. meioclados
and
A. munitus
, 14,685 and 14,987 codons were detected, among which 9942 and 10,207 had the relative synonymous codon usage (RSCU) values higher than 1, respectively.
A. meioclados
and
A. munitus
have 26 SSRs patterns, among which
A. meioclados
was 25 and
A. munitu
s 21. The average Ka/Ks value was 0.36, and positive selection was detected in genes of the photosynthetic system (
ndhF
and
rbcL
) in
Asparagus
species. To perform the comparative analysis of plastomes, the two newly sequenced plastomes of the
A. meioclados
and
A. munitus
species were compared with that of
A. cochinchinensis
, and 12 hotspots, including 5 coding regions and 7 inter-genomic regions, were identified. Based on the whole plastome of
Asparagus
, 2 divergent hotspots (
accD
and
rpl32-trnL-UAG
) and 1 international barcode fragment (
rbcL
) were screened, which may be used as particular molecular markers for the identification of
Asparagus
species. In addition, we determined the phylogenetic relationship between
A. meioclados
and
A. munitus
in the genus
Asparagus
. This study enriches our knowledge of the molecular evolutionary relationships of the
Asparagus
genus and provides treasured data records for species identification, molecular breeding, and evolutionary analysis of this genus. |
---|---|
Bibliography: | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 |
ISSN: | 2045-2322 2045-2322 |
DOI: | 10.1038/s41598-023-42945-x |