Genome-Wide Analysis of KNOX Genes in Brassicaceae: Evolution, Comparative Genomics, and Expression Dynamics in B. napus Floral and Silique Development DOI Creative Commons
Xiaoli He,

Chengfang Tan

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: Oct. 24, 2024

Abstract Background Knotted-like homeobox (KNOX) genes, belonging to a subfamily of the gene family, play crucial roles in cell fate determination and body plan specification during early embryogenesis higher organisms. Brassica rapa (B. rapa, AA), oleracea oleracea, CC) their natural hybridization named napus napus, AACC) are excellent models for study polyploidy genes because they undego genome triplication events after Arabidopsis-Brassiceae divergence. Moreover, specific structure functional differentiation KNOXs B. is still unclear. Methods results KNOX homologs from three Brassica species, namely, were downloaded database. Their evolutionary conservation classification analyzed with bioinformatics tools. This identified 32, 15 14 respectively. Phylogenetic analysis revealed that can be classified into classes based on structural characteristics. The KNOX homologue proteins across species consistently share highly conserved domain organization. Synteny indicated family expanded allopolyploidization, whole-gene duplication segmental being primary contributors majority duplications. Further analyses cis-elements, structures expression patterns showed high among members within same group. RNA-seq data clearly divided BnKNOXs classes: Class I exhibited moderate buds inflorescence tips; III low seeds stamens; while second class shows most tissues. qRT-PCR results widespread involvement reproductive organ development. Conclusions diversification significant plant evolution formation, providing robust foundation following structure, tissue-specific underscore sequence differences BnKNOX genes. distinct development highlighted. These findings lay groundwork further studies napus.

Language: Английский

Mapping of leaf lobe-related genes in melon (Cucumis melo L.) via bulked segregant analysis DOI

Meng-Ling Zheng,

Lü Yang,

Ding-Ding Zuo

et al.

Euphytica, Journal Year: 2025, Volume and Issue: 221(3)

Published: Feb. 3, 2025

Language: Английский

Citations

0
Genome-wide identification and characterization of the KNOX gene family in Vitis amurensis DOI Creative Commons

Linling Liu,

Wenpeng Lu,

Shutian Fan

et al.

PeerJ, Journal Year: 2025, Volume and Issue: 13, P. e19250 - e19250

Published: April 9, 2025

The KNOX (KNOTTED1-like homeobox gene) gene family plays a pivotal role in controlling plant growth, maturation, and morphogenesis. However, the function of Vitis amurensis has not yet been reported. This study identified characterized entire amurensis. By employing bioinformatic approaches, phylogenetic relationships, chromosomal positions, architectures, conserved motifs, cis-regulatory elements present promoter regions, expression profiles members were analyzed. Ten genes spanning nine chromosomes discovered, these subsequently categorized into two distinct subclasses. regions include cis-acting that are involved hormonal regulation, stress light responses. An examination different tissues revealed Class I presented tissue-specific patterns, whereas belonging to II more ubiquitous across various tissues. levels KNOTTED1-like (VaKNOX)2, VaKNOX3, VaKNOX5 highest fruits. VaKNOX2, can serve as candidate for enhancing fruit quality. VaKNOX6 VaKNOX7 much higher cold environments than normal conditions. Through in-depth research functions VaKNOX7, we aimed improve resistance grapevine varieties.

Language: Английский

Citations

0
Exploring the Roles of TALE Gene Family in Maize Drought Stress Responses DOI Creative Commons

Buxuan Qian,

Qi Wang, Chuang Zhang

et al.

Agronomy, Journal Year: 2024, Volume and Issue: 14(6), P. 1267 - 1267

Published: June 12, 2024

The TALE gene family plays a crucial role in regulating growth, development, and abiotic stress responses plants. However, limited studies have been conducted on the functions of ZmTALE maize under drought stress. This study identified 40 members within genome through Blast comparisons, distributed unevenly across first nine chromosomes. Intraspecific collinearity analysis revealed 13 linked pairs. By constructing phylogenetic tree with Arabidopsis AtTALE as references, were divided into two subfamilies, KNOX BEL1-Like, further three branches (KNOX Class I, II, III). structure motifs genes same subfamily or branch showed similarities, did their encoded proteins, which possess similar conserved domains. Analysis physicochemical properties proteins that by this are stable. Expression demonstrated varied roles development regulation, confirmed qRT-PCR. identification, characterization, expression provide reference for future function research aid genetic enhancement to withstand

Language: Английский

Citations

0
Genome-Wide Analysis of KNOX Genes in Brassicaceae: Evolution, Comparative Genomics, and Expression Dynamics in B. napus Floral and Silique Development DOI Creative Commons
Xiaoli He,

Chengfang Tan

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: Oct. 24, 2024

Abstract Background Knotted-like homeobox (KNOX) genes, belonging to a subfamily of the gene family, play crucial roles in cell fate determination and body plan specification during early embryogenesis higher organisms. Brassica rapa (B. rapa, AA), oleracea oleracea, CC) their natural hybridization named napus napus, AACC) are excellent models for study polyploidy genes because they undego genome triplication events after Arabidopsis-Brassiceae divergence. Moreover, specific structure functional differentiation KNOXs B. is still unclear. Methods results KNOX homologs from three Brassica species, namely, were downloaded database. Their evolutionary conservation classification analyzed with bioinformatics tools. This identified 32, 15 14 respectively. Phylogenetic analysis revealed that can be classified into classes based on structural characteristics. The KNOX homologue proteins across species consistently share highly conserved domain organization. Synteny indicated family expanded allopolyploidization, whole-gene duplication segmental being primary contributors majority duplications. Further analyses cis-elements, structures expression patterns showed high among members within same group. RNA-seq data clearly divided BnKNOXs classes: Class I exhibited moderate buds inflorescence tips; III low seeds stamens; while second class shows most tissues. qRT-PCR results widespread involvement reproductive organ development. Conclusions diversification significant plant evolution formation, providing robust foundation following structure, tissue-specific underscore sequence differences BnKNOX genes. distinct development highlighted. These findings lay groundwork further studies napus.

Language: Английский

Citations

0