Analysis of codon usage patterns in 48 Aconitum species.

Codon Usage Aconitum / genetics Phylogeny Codon / genetics Biological Evolution Magnoliopsida / genetics Selection, Genetic
Aconitum Codon usage bias Complete genome Optimal codon

Journal

BMC genomics
ISSN: 1471-2164
Titre abrégé: BMC Genomics
Pays: England
ID NLM: 100965258

Informations de publication

Date de publication:
22 Nov 2023
Historique:
received: 18 11 2022
accepted: 05 09 2023
medline: 24 11 2023
pubmed: 23 11 2023
entrez: 22 11 2023
Statut: epublish

Résumé

The Aconitum genus is a crucial member of the Ranunculaceae family. There are 350 Aconitum species worldwide, with about 170 species found in China. These species are known for their various pharmacological effects and are commonly used to treat joint pain, cold abdominal pain, and other ailments. Codon usage bias (CUB) analysis contributes to evolutionary relationships and phylogeny. Based on protein-coding sequences (PCGs), we selected 48 species of Aconitum for CUB analysis. The results revealed that Aconitum species had less than 50% GC content. Furthermore, the distribution of GC content was irregular and followed a trend of GC The CUB analysis of 48 species of Aconitum was mainly influenced by natural selection. This study reveals the CUB pattern of Aconitum and lays the foundation for future genetic modification and phylogenetic analyses.

Sections du résumé

BACKGROUND BACKGROUND
The Aconitum genus is a crucial member of the Ranunculaceae family. There are 350 Aconitum species worldwide, with about 170 species found in China. These species are known for their various pharmacological effects and are commonly used to treat joint pain, cold abdominal pain, and other ailments. Codon usage bias (CUB) analysis contributes to evolutionary relationships and phylogeny. Based on protein-coding sequences (PCGs), we selected 48 species of Aconitum for CUB analysis.
RESULTS RESULTS
The results revealed that Aconitum species had less than 50% GC content. Furthermore, the distribution of GC content was irregular and followed a trend of GC
CONCLUSIONS CONCLUSIONS
The CUB analysis of 48 species of Aconitum was mainly influenced by natural selection. This study reveals the CUB pattern of Aconitum and lays the foundation for future genetic modification and phylogenetic analyses.

Identifiants

DOI: 10.1186/s12864-023-09650-5 PMID: 37993787 PMC: PMC10664653
pubmed: 37993787
doi: 10.1186/s12864-023-09650-5
pii: 10.1186/s12864-023-09650-5
pmc: PMC10664653
doi:

Substances chimiques

Codon 0

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

703

Subventions

Organisme : Project of the science research foundation of Yunnan Provincial Department of Education
ID : 2022Y819
Organisme : Major Projects of Science and Technology Plan of Dali state
ID : D2019NA03
Organisme : Li Jian Expert Workstation of Yunnan Province
ID : (2020-1) (202005AF150013)

Informations de copyright

© 2023. The Author(s).

Références

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W273-9
pubmed: 15215394
Bioinformatics. 2014 May 1;30(9):1312-3
pubmed: 24451623
Gene. 2009 Mar 15;433(1-2):8-15
pubmed: 19159666
Infect Immun. 2005 Sep;73(9):5666-74
pubmed: 16113284
Dev Genes Evol. 2021 Mar;231(1-2):1-9
pubmed: 33180191
Genes Genet Syst. 2003 Oct;78(5):343-52
pubmed: 14676425
Nucleic Acids Res. 2000 May 15;28(10):2084-90
pubmed: 10773076
Mitochondrial DNA B Resour. 2020 Jul 25;5(3):2982-2983
pubmed: 33458024
Theor Appl Genet. 2018 Jan;131(1):43-58
pubmed: 28965125
Curr Opin Genet Dev. 2002 Dec;12(6):640-9
pubmed: 12433576
Mol Biol Evol. 2017 Dec 1;34(12):3299-3302
pubmed: 29029172
Plant Cell Rep. 2006 Mar;25(2):124-32
pubmed: 16249870
PeerJ. 2020 Jan 6;8:e8251
pubmed: 31934501
Proc Natl Acad Sci U S A. 2001 Nov 20;98(24):13763-8
pubmed: 11698650
Methods. 2016 Jun 1;102:26-35
pubmed: 26850284
Am J Hum Genet. 2020 Jul 2;107(1):83-95
pubmed: 32516569
Gene. 2014 Aug 15;547(1):136-44
pubmed: 24967940
Front Genet. 2022 May 31;13:878182
pubmed: 35711937
Mol Biol Evol. 2013 Apr;30(4):772-80
pubmed: 23329690
Nucleic Acids Res. 1987 Feb 11;15(3):1281-95
pubmed: 3547335
Genome Biol. 2016 Jun 23;17(1):134
pubmed: 27339192
Sci Rep. 2016 Sep 13;6:33293
pubmed: 27623541
Gene. 1990 Mar 1;87(1):23-9
pubmed: 2110097
Curr Microbiol. 2014 Mar;68(3):293-300
pubmed: 24129839
Molecules. 2018 Apr 26;23(5):
pubmed: 29701675
J Genet. 2020;99:
pubmed: 32089527
Mol Phylogenet Evol. 2012 Jan;62(1):206-13
pubmed: 22040764
Physiol Mol Biol Plants. 2021 Dec;27(12):2727-2737
pubmed: 35035132
Gene. 1999 Sep 30;238(1):53-8
pubmed: 10570983
BMC Genomics. 2020 Dec 16;21(Suppl 5):234
pubmed: 33327935

Auteurs

Meihua Yang (M)

College of Pharmaceutical Science, Dali University, Dali, Yunnan, 671000, China.
Key Laboratory of Yunnan Provincial Higher Education Institutions for Development of Yunnan Daodi Medicinal Materials Resources, Dali, Yunnan, 671000, China.

Jiahao Liu (J)

College of Pharmaceutical Science, Dali University, Dali, Yunnan, 671000, China.
Key Laboratory of Yunnan Provincial Higher Education Institutions for Development of Yunnan Daodi Medicinal Materials Resources, Dali, Yunnan, 671000, China.

Wanqing Yang (W)

College of Pharmaceutical Science, Dali University, Dali, Yunnan, 671000, China.
Key Laboratory of Yunnan Provincial Higher Education Institutions for Development of Yunnan Daodi Medicinal Materials Resources, Dali, Yunnan, 671000, China.

Zhen Li (Z)

College of Pharmaceutical Science, Dali University, Dali, Yunnan, 671000, China.
Key Laboratory of Yunnan Provincial Higher Education Institutions for Development of Yunnan Daodi Medicinal Materials Resources, Dali, Yunnan, 671000, China.

Yonglin Hai (Y)

College of Pharmaceutical Science, Dali University, Dali, Yunnan, 671000, China.
Key Laboratory of Yunnan Provincial Higher Education Institutions for Development of Yunnan Daodi Medicinal Materials Resources, Dali, Yunnan, 671000, China.

Baozhong Duan (B)

College of Pharmaceutical Science, Dali University, Dali, Yunnan, 671000, China.
Key Laboratory of Yunnan Provincial Higher Education Institutions for Development of Yunnan Daodi Medicinal Materials Resources, Dali, Yunnan, 671000, China.

Haizhu Zhang (H)

College of Pharmaceutical Science, Dali University, Dali, Yunnan, 671000, China.
Western Yunnan Traditional Chinese Medicine and Ethnic Drug Engineering Center, Dali, Yunnan, 671000, China.

Xiaoli Yang (X)

College of Pharmaceutical Science, Dali University, Dali, Yunnan, 671000, China. yteacher@126.com.
Key Laboratory of Yunnan Provincial Higher Education Institutions for Development of Yunnan Daodi Medicinal Materials Resources, Dali, Yunnan, 671000, China. yteacher@126.com.

Conglong Xia (C)

College of Pharmaceutical Science, Dali University, Dali, Yunnan, 671000, China. long7484@126.com.
Key Laboratory of Yunnan Provincial Higher Education Institutions for Development of Yunnan Daodi Medicinal Materials Resources, Dali, Yunnan, 671000, China. long7484@126.com.

Articles similaires

Comprehensive comparative analysis and development of molecular markers for Lasianthus species based on complete chloroplast genome sequences.

Yue Zhang, Meifang Song, Deying Tang et al.
1.00
Genome, Chloroplast Phylogeny Genetic Markers Base Composition High-Throughput Nucleotide Sequencing

Decoding the genomic terrain: functional insights into 14 chemosensory proteins in whitefly Bemisia tabaci Asia II-1.

M N Rudra Gouda, Sabtharishi Subramanian
1.00
Animals Hemiptera Insect Proteins Phylogeny Insecticides

Multiple NADPH-cytochrome P450 reductases from Lycoris radiata involved in Amaryllidaceae alkaloids biosynthesis.

Yuqing Wu, Yifeng Zhang, Haitong Fan et al.
1.00
Amaryllidaceae Alkaloids Lycoris NADPH-Ferrihemoprotein Reductase Gene Expression Regulation, Plant Plant Proteins

Systematical characterization of Rab7 gene family in Gossypium and potential functions of GhRab7B3-A gene in drought tolerance.

Mengyuan Yan, Zhiwei Dong, Tian Pan et al.
1.00
Drought Resistance Gene Expression Profiling Gene Expression Regulation, Plant Gossypium Multigene Family

Classifications MeSH

questionsmedicales.fr › Phénomènes génétiques › Structures génétiques › Code génétique › Usage des codons › Analysis of codon usage patterns in 48...
questionsmedicales.fr › Eucaryotes › Viridiplantae › Streptophyta › Embryophyta › Tracheobionta › Magnoliopsida › Ranunculales › Ranonculaceae › Aconitum › Analysis of codon usage patterns in 48...
questionsmedicales.fr › Sciences de l'information › Phylogenèse › Analysis of codon usage patterns in 48...
questionsmedicales.fr › Phénomènes génétiques › Structures génétiques › Génome › Composants de génome › Gènes › Composants de gène › Codon › Analysis of codon usage patterns in 48...
questionsmedicales.fr › Phénomènes biologiques › Évolution biologique › Analysis of codon usage patterns in 48...
questionsmedicales.fr › Eucaryotes › Viridiplantae › Streptophyta › Embryophyta › Tracheobionta › Magnoliopsida › Analysis of codon usage patterns in 48...
questionsmedicales.fr › Phénomènes génétiques › Sélection génétique › Analysis of codon usage patterns in 48...