Phylotranscriptomic insights into Asteraceae diversity, polyploidy, and morphological innovation

Journal of Integrative Plant Biology, Journal Year: 2021, Volume and Issue: 63(7), P. 1273 - 1293

Published: Feb. 10, 2021

Biodiversity is not evenly distributed among related groups, raising questions about the factors contributing to such disparities. The sunflower family (Asteraceae, >26,000 species) largest and most diverse plant families, but its species diversity concentrated in a few subfamilies, providing an opportunity study affecting biodiversity. Phylotranscriptomic analyses here of 244 transcriptomes genomes produced phylogeny with strong support for monophyly Asteraceae subfamilies tribes. This provides reference detecting changes diversification rates possible diversity, which include global climate shifts, whole-genome duplications (WGDs), morphological evolution. origin was estimated at ~83 Mya, having diverged before Cretaceous-Paleocene boundary. supported existence 41 WGDs Asteraceae. Changes herbaceousness capitulescence multiple flower-like capitula, often distinct florets scaly pappus/receptacular bracts, are associated upshifts rate. might have contributed survival early by new genetic materials transitions. resulting competitive advantage adapting different niches would increased biodiversity

Language: Английский

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Activity and Phylogenetics of the Broadly Occurring Family of Microbial Nep1-Like Proteins

Annual Review of Phytopathology, Journal Year: 2019, Volume and Issue: 57(1), P. 367 - 386

Published: July 8, 2019

Necrosis- and ethylene-inducing peptide 1 (Nep1)-like proteins (NLP) have an extremely broad taxonomic distribution; they occur in bacteria, fungi, oomycetes. NLPs come two forms, those that are cytotoxic to eudicot plants noncytotoxic. Cytotoxic bind glycosyl inositol phosphoryl ceramide (GIPC) sphingolipids abundant the outer leaflet of plant plasma membranes. Binding allows NLP become cytolytic eudicots but not monocots. The function noncytotoxic remains enigmatic, expansion genes oomycete genomes suggests important. Several species evolved capacity recognize as molecular patterns trigger immunity, e.g., Arabidopsis thaliana detects nlp peptides via receptor-like protein RLP23. In this review, we provide a historical perspective from discovery understanding mechanisms describe latest developments field shed light on these fascinating microbial proteins.

Language: Английский

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A novel integrated non-targeted metabolomic analysis reveals significant metabolite variations between different lettuce (Lactuca sativa. L) varieties

Horticulture Research, Journal Year: 2018, Volume and Issue: 5(1)

Published: June 23, 2018

Lettuce is an important leafy vegetable that represents a significant dietary source of antioxidants and bioactive compounds. However, the levels metabolites in different lettuce cultivars are poorly characterized. In this study, we used combined GC × GC-TOF/MS UPLC-IMS-QTOF/MS to detect relatively quantify 30 representing large genetic diversity. Comparison with online databases, published literature, standards as well using collision cross-section values enabled putative identification 171 metabolites. Sixteen these (including phenolic acid derivatives, glycosylated flavonoids, one iridoid) were present at significantly leaf head type lettuces, which suggested metabolomic variations between types related secondary metabolism. A combination results metabolic network analysis techniques lettuces contain not only but also have corresponding associated networks. The novel metabolite library non-targeted metabolomics strategy devised study could be further characterize or other plants. Moreover, findings provide insight into adaptations due natural human selection, stimulate research potentially improve quality, yield, nutritional value.

Language: Английский

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Transcriptome driven characterization of curly- and smooth-leafed endives reveals molecular differences in the sesquiterpenoid pathway

Horticulture Research, Journal Year: 2018, Volume and Issue: 6(1)

Published: Dec. 31, 2018

Endives (Cichorium endivia L.) are popular vegetables, diversified into curly/frisée- and smooth/broad-leafed (escaroles) cultivar types (cultigroups), consumed as fresh bagged salads. They rich in sesquiterpene lactones (STL) that exert proven function on bitter taste human health. The assembly of a reference transcriptome 77,022 unigenes RNA-sequencing experiments were carried out to characterize the differences between endives escaroles at gene structural expression levels. A set 3177 SNPs distinguished smooth from curly cultivars, an SNP-supported phylogenetic tree separated cultigroups two distinct clades, consistently with botanical varieties origin (crispum latifolium, respectively). pool 699 genes maintained differential pattern (core-DEGs) pairwise comparisons vs cultivars grown same environment. Accurate annotation allowed identification 26 sesquiterpenoid biosynthesis pathway, which included several g ermacrene s ynthase, o xidase co stunolide ynthase members (GAS/GAO/COS module), required for synthesis costunolide, key precursor lactucopicrin- lactucin-like lactones. core-DEGs contained GAS (contig83192) was positively correlated STL levels recurrently more expressed than endives, suggesting cultigroup-specific behavior. significant positive correlation GAS/GAO/COS transcription abundance (2.4-fold higher frisée endives) suggested pathway control occurs transcriptional level. Based analyses, five factors (MYB, MYB-related WRKY) inferred act contig83192/GAS specific STL, occurrence routes biosynthesis.

Language: Английский

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De novo whole-genome assembly in Chrysanthemum seticuspe, a model species of Chrysanthemums, and its application to genetic and gene discovery analysis

DNA Research, Journal Year: 2019, Volume and Issue: 26(3), P. 195 - 203

Published: Jan. 2, 2019

Cultivated chrysanthemum (Chrysanthemum morifolium Ramat.) is one of the most economically important ornamental crops grown worldwide. It has a complex hexaploid genome (2n = 6x 54) and large size. The diploid Chrysanthemum seticuspe often used as model cultivated chrysanthemum, since two species are closely related. To expand our knowledge we here performed de novo whole-genome assembly in C. using Illumina sequencing platform. XMRS10, accession developed by five generations self-crossing from self-compatible strain, AEV2, was for sequencing. 2.72 Gb assembled sequences (CSE_r1.0), consisting 354,212 scaffolds, covered 89.0% 3.06 estimated k-mer analysis. N50 length scaffolds 44,741 bp. For protein-encoding genes, 71,057 annotated genes were deduced (CSE_r1.1_cds). Next, based on sequences, linkage map construction, gene discovery comparative analyses chrysanthemum. generated revealed skewed regions segregation AEV2 genome. In analysis, candidate flowering-related newly found CSE_r1.1_cds. Moreover, single nucleotide polymorphism identification annotation × showed that applicable to genetic analysis chrysanthemums. herein expected contribute future studies. addition, approach demonstrated usefulness short-read importance choosing an appropriate next technology purpose post-genome

Language: Английский

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