Phylogenomics and adaptive evolution of hydrophytic umbellifers (tribe Oenantheae, Apioideae) revealed from chloroplast genomes DOI Creative Commons
Jun Wen, Junwen Zhu, Xiaofei Ma

et al.

BMC Plant Biology, Journal Year: 2024, Volume and Issue: 24(1)

Published: Nov. 28, 2024

Tribe Oenantheae consists mainly of aquatic species within the Apioideae. The unique morphology and habitat distinguish this group from other Apioideae groups. However, genomic information these has not been widely developed, molecular mechanisms adaptive evolution remain unclear. We provide comparative analyses on 30 chloroplast genomes tribe representing five genera to explore variation response plant adaptations. presented typical quadripartite structures, with sizes ranging 153,024 bp 155,006 bp. Gene content order were highly conserved no significant expansion or contraction observed. Seven regions (rps16 intron–trnK, rpoB–trnC, trnE–trnT–psbD, petA–psbJ, ndhF–rpl32–trnL, ycf1a–rps15, ycf1a gene) identified as remarkable candidate DNA markers for future studies identification, biogeography, phylogeny Oenantheae. Our study elucidated relationships among subdivided Sium Oenanthe. Oenanthe I clade be further clarified. Eight positively selected genes (accD, rbcL, rps8, ycf1a, ycf1b, ycf2, ndhF, ndhK) persuasively detected under site models tests, might have played roles in adaptation environments. results sufficient subsequent Oenantheae, promote understanding

Language: Английский

Leveraging artificial intelligence for bamboo breeding in the context of "Bamboo as a Substitute for Plastic" initiative DOI Creative Commons
Huayu Sun,

Xiaolin Di,

Zhimin Gao

et al.

Industrial Crops and Products, Journal Year: 2025, Volume and Issue: 228, P. 120896 - 120896

Published: March 25, 2025

Language: Английский

Citations

0
Haplotype-resolved nonaploid genome provides insights into in vitro flowering in bamboos DOI Creative Commons
Yujiao Wang, Cen Guo, Lei Zhao

et al.

Horticulture Research, Journal Year: 2024, Volume and Issue: 11(12)

Published: Sept. 4, 2024

Abstract Woody bamboos (Bambusoideae) are renowned for its polyploidy and rare flowering. Bambusa odashimae is one of the bamboo species with highest chromosome count (104) in subfamily has heterozygosity all sequenced genomes so far. Compared other species, it can efficiently utilize exogenous hormones to regulate vitro flowering, providing valuable insights into hormonal regulation Here, we generated haplotype-resolved genome assembly B. odashimae, despite complexity high number, supplemented by thirty-three transcriptomes from eleven developmental periods using a tissue culture system. The assembled be divided Haplotype I, II, III, each containing A, B, C subgenomes. I may derived Dendrocalamus whereas Haplotypes II III closely related Bambusa, indicating that an origin involving both intergeneric interspecific hybridizations. renders possibility detect abundant allele-specific expression (ASE), ASE genes enriched cytokinin-related pathways, likely associated efficient cytokinin-promoted Notably, found CONSTANS (CO) were potentially key regulators flowering odashimae. Overall, based on system combined high-quality reference genome, our study provides critical this nonaploid links hybridization bamboos.

Language: Английский

Citations

2
Subgenome asymmetry of gibberellins-related genes plays important roles in regulating rapid growth of bamboos DOI Creative Commons

Ling Mao,

Cen Guo,

Liang-Zhong Niu

et al.

Plant Diversity, Journal Year: 2024, Volume and Issue: unknown

Published: Oct. 1, 2024

Rapid growth is an innovative trait of woody bamboos that has been widely studied. However, the genetic basis and evolution this are poorly understood. Taking advantage genomic resources 11 representative at different ploidal levels, we integrated morphological, physiological, transcriptomic datasets to investigate rapid growth. In particular, these include two large-sized a small-sized species, compared with diploid herbaceous species. Our results showed gibberellin A1 was important for shoot world's largest bamboo, Dendrocalamus sinicus, indicated gibberellins (GAs)-related genes, KAO SLRL1, were key culm size in bamboos. The expression GAs-related genes exhibited significant subgenome asymmetry subgenomes A C demonstrating dominance while generally submissive B D dominating found be correlated subgenome-specific gene structure, particularly UTRs core promoters. study provides novel insights into molecular mechanism following allopolyploidization bamboos, via asymmetry. These findings helpful understanding how polyploidization general particular contributed origin traits plants.

Language: Английский

Citations

2
Phylogenomics and adaptive evolution of hydrophytic umbellifers (tribe Oenantheae, Apioideae) revealed from chloroplast genomes DOI Creative Commons
Jun Wen, Junwen Zhu, Xiaofei Ma

et al.

BMC Plant Biology, Journal Year: 2024, Volume and Issue: 24(1)

Published: Nov. 28, 2024

Tribe Oenantheae consists mainly of aquatic species within the Apioideae. The unique morphology and habitat distinguish this group from other Apioideae groups. However, genomic information these has not been widely developed, molecular mechanisms adaptive evolution remain unclear. We provide comparative analyses on 30 chloroplast genomes tribe representing five genera to explore variation response plant adaptations. presented typical quadripartite structures, with sizes ranging 153,024 bp 155,006 bp. Gene content order were highly conserved no significant expansion or contraction observed. Seven regions (rps16 intron–trnK, rpoB–trnC, trnE–trnT–psbD, petA–psbJ, ndhF–rpl32–trnL, ycf1a–rps15, ycf1a gene) identified as remarkable candidate DNA markers for future studies identification, biogeography, phylogeny Oenantheae. Our study elucidated relationships among subdivided Sium Oenanthe. Oenanthe I clade be further clarified. Eight positively selected genes (accD, rbcL, rps8, ycf1a, ycf1b, ycf2, ndhF, ndhK) persuasively detected under site models tests, might have played roles in adaptation environments. results sufficient subsequent Oenantheae, promote understanding

Language: Английский

Citations

2