Phylogenomic analysis of cytochrome P450 multigene family and their differential expression analysis in Solanum lycopersicum L. suggested tissue specific promoters

Vasav, Arati P.; Barvkar, Vitthal T.

doi:10.1186/s12864-019-5483-x

Cited by 50 publications

(28 citation statements)

References 70 publications

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“…This directly led to much less production of SLs in LA0716, IL6‐2 and IL6‐3, the cause for P. aegyptiaca resistance. Currently, based on the conserved motifs, 233 Sl P450 genes with tissue specific promoters have been identified from tomato genome and classified into nine clans 68 . By comparative analysis with these results, we found that Solyc06g073570 (SlCYP82W1) belonged to clan 71, and different from the identified SlCYP711A 48 and SlCYP722C 69 .…”

Section: Discussionmentioning

confidence: 91%

Exploration of resistance to Phelipanche aegyptiaca in tomato

Bai

Wei²,

Shu

et al. 2020

Pest Management Science

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BACKGROUND: Cultivated tomatoes are highly susceptible to the destructive parasite Phelipanche aegyptiaca. Wild relatives show the potential resistance for genetic improvement. However, their genetic and molecular mechanisms are still unknown. RESULTS: Among 50 wild tomato accessions were evaluated for resistance to P. aegyptiaca, most of the wild relatives exhibited varying degrees of resistance compared to the cultivars. Solanum pennellii LA0716 performed the most promising and solid resistance with very low infection by the broomrape. The resistance involved in LA0716 was further confirmed by cytological analysis, and explored by employing a permanent introgression line (IL) population. Thirteen putative quantitative trait loci (QTLs) conferring the different resistance traits were identified. They are located on chromosomes 1, 2, 3, 4, 6, 8 and 9. The most attractive QTLs are positioned in IL6-2 and overlap with IL6-3. Specially, IL6-2 showed the highest and most consistent resistance for multiple traits and explained the major phenotypic variation of LA0716. Analysis of candidate genes involved in these regions showed that Beta (Solyc06g074240) and P450 (Solyc06g073570, Solyc06g074180 and Solyc06g074420) genes are substantially related to the strigolactone (SL) pathway. Transcript analysis further demonstrated that both Solyc06g073570 and Solyc06g074180 might play an important role in the reduction of P. aegyptiaca infection. CONCLUSION: Germplasms resistant to P. aegyptiaca were found in wild tomato species. QTLs conferring P. aegyptiaca tolerance in LA0716 were identified. IL6-2 is identified as a prospective line possessing the major QTLs. The candidate genes would provide the availability to assist the introgression of the resistance in future breeding programmes.

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Section: Discussionmentioning

confidence: 91%

Exploration of resistance to Phelipanche aegyptiaca in tomato

Bai

Wei²,

Shu

et al. 2020

Pest Management Science

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“…Cytochrome P450s are evolutionarily conserved enzymes that are involved in the catalysis of numerous reactions, required for growth, development, defence [30] and secondary metabolism [31]. Prior to this study, no CYP450 genes had been identi ed, let alone characterized, in any species of the genus Fontainea.…”

Section: Discussionmentioning

confidence: 99%

The CYP450 Multigene Family of Fontainea and Insights Into Diterpenoid Synthesis

Mitu

Ogbourne

Klein

et al. 2021

Preprint

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Background: Cytochrome P450s (CYP450s) are enzymes that play critical roles in the biosynthesis of physiologically important compounds across all organisms. Although they have been characterised in a large number of plant species, no information relating to these enzymes are available from the genus Fontainea (family Euphorbiaceae). Fontainea is significant as the genus includes species that produce medicinally significant epoxy-tigliane natural products, one of which has been approved as an anti-cancer therapeutic. Results: A metabolome analysis showed that Fontainea species possess a chemical profile different from various other plant species. The diversity and expression profiles of Fontainea CYP450s were investigated from leaf and root tissue. A total of 103 and 123 full-length CYP450 genes in Fontainea picrosperma and Fontainea venosa, respectively (and a further 127/125 partial-length) that were phylogenetically classified into clans, families and subfamilies. The majority of CYP450 identified are most active within root tissue (66.2% F. picrosperma, 65.0% F. venosa). Fontainea CYP450 associated with diterpenoid biosynthesis were classified into 2 subfamilies (CYP71D and CYP726A), of which CYP726A1, CYP726A2 and CYP71D1 appear to be exclusive to Fontainea species, and significantly more highly expressed in root tissue compared to leaf tissue. Conclusion: This study presents a comprehensive overview of the CYP450 gene family in Fontainea that may provide important insights into the biosynthesis of the medicinally significant epoxy-tigliane diterpenes found within the genus.

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“…The single-family clans restrict themselves from gene duplication, and the enzymes they include are highly conserved with essential functions. These clans are most likely to undergo negative selection [ 86 ]. CYP51 is considered to be one of the most conserved and the oldest eukaryotic CYP450s [ 80 ].…”

Section: Discussionmentioning

confidence: 99%

Characterization and Analysis of the Full-Length Transcriptomes of Multiple Organs in Pseudotaxus chienii (W.C.Cheng) W.C.Cheng

Liu

Wang

et al. 2020

IJMS

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Pseudotaxus chienii, a rare tertiary relict species with economic and ecological value, is a representative of the monotypic genus Pseudotaxus that is endemic to China. P. chienii can adapt well to habitat isolation and ecological heterogeneity under a variety of climate and soil conditions, and is able to survive in harsh environments. However, little is known about the molecular and genetic resources of this long-lived conifer. Herein, we sequenced the transcriptomes of four organs of P. chienii using the PacBio Isoform Sequencing and Illumina RNA Sequencing platforms. Based on the PacBio Iso-Seq data, we obtained 44,896, 58,082, 50,485, and 67,638 full-length unigenes from the root, stem, leaf, and strobilus, respectively, with a mean length of 2692 bp, and a mean N50 length of 3010.75 bp. We then comprehensively annotated these unigenes. The number of organ-specific expressed unigenes ranged from 4393 in leaf to 9124 in strobilus, suggesting their special roles in physiological processes, organ development, and adaptability in the different four organs. A total of 16,562 differentially expressed genes (DEGs) were identified among the four organs and clustered into six subclusters. The gene families related to biotic/abiotic factors, including the TPS, CYP450, and HSP families, were characterized. The expression levels of most DEGs in the phenylpropanoid biosynthesis pathway and plant–pathogen interactions were higher in the root than in the three other organs, suggesting that root constitutes the main organ of defensive compound synthesis and accumulation and has a stronger ability to respond to stress. The sequences were analyzed to predict transcription factors, long non-coding RNAs, and alternative splicing events. The expression levels of most DEGs of C2H2, C3H, bHLH, and bZIP families in the root and stem were higher than those in the leaf and strobilus, indicating that these TFs may play a crucial role in the survival of the root and stem. These results comprise the first comprehensive gene expression profiles obtained for different organs of P. chienii. Our findings will facilitate further studies on the functional genomics, adaptive evolution, and phylogeny of P. chienii, and lay the foundation for the development of conservation strategies for this endangered conifer.

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Phylogenomic analysis of cytochrome P450 multigene family and their differential expression analysis in Solanum lycopersicum L. suggested tissue specific promoters

Cited by 50 publications

References 70 publications

Exploration of resistance to Phelipanche aegyptiaca in tomato

Exploration of resistance to Phelipanche aegyptiaca in tomato

The CYP450 Multigene Family of Fontainea and Insights Into Diterpenoid Synthesis

Characterization and Analysis of the Full-Length Transcriptomes of Multiple Organs in Pseudotaxus chienii (W.C.Cheng) W.C.Cheng

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