ArticleBMC genomics2018
Defence transcriptome assembly and pathogenesis related gene family analysis in Pinus tecunumanii (low elevation).
Article in BMC genomics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
18 citing papers in PubMed, 38 citations in OpenAlex.
- Resin defense in Pinus-Fusarium circinatum interactions: an evolutionary paradox.Journal of experimental botany · 2026Article
- Dual RNA-seq analysis reveals differences in defensive lncRNA expression in Pinus spp. with varying susceptibility to Fusarium circinatum.BMC plant biology · 2026Article
- Genome-wide association study reveals genomic regions associated withFrontiers in plant science · 2026Article
- Full-Length Transcriptome Sequencing-Based Analysis ofInsects · 2022Article
- Genome-wide identification and characterization of Fusarium circinatum-responsive lncRNAs in Pinus radiata.BMC genomics · 2022Article
- Studying tree response to biotic stress using a multi-disciplinary approach: The pine pitch canker case study.Frontiers in plant science · 2022Review
- Transcriptional profiling reveals conserved and species-specific plant defense responses during the interaction of Physcomitrium patens with Botrytis cinerea.Plant molecular biology · 2021Article
- Dual RNA-Sequencing Analysis of Resistant (International journal of molecular sciences · 2021Article
- Transcript Dynamics in Wounded and Inoculated Scots Pine.International journal of molecular sciences · 2021Article
- Article
- Genome-wide analyses of cassava Pathogenesis-related (PR) gene families reveal core transcriptome responses to whitefly infestation, salicylic acid and jasmonic acid.BMC genomics · 2020Article
- The transcriptome of Pinus pinaster under Fusarium circinatum challenge.BMC genomics · 2020Article
- The Threat of the Combined Effect of Biotic and Abiotic Stress Factors in Forestry Under a Changing Climate.Frontiers in plant science · 2020Review
- Functional and morphological evolution in gymnosperms: A portrait of implicated gene families.Evolutionary applications · 2020Article
- RNA-seq, de novo transcriptome assembly and flavonoid gene analysis in 13 wild and cultivated berry fruit species with high content of phenolics.BMC genomics · 2019Article
- Utilization of Tissue Ploidy Level Variation inG3 (Bethesda, Md.) · 2019Article
- Dual RNA-Seq Analysis of the Pine-Microorganisms · 2019Article
- The Road to Resistance in Forest Trees.Frontiers in plant science · 2019Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 2 institutions in 2 countries.
Funding
Abstract
backgroundFusarium circinatum is a pressing threat to the cultivation of many economically important pine tree species. Efforts to develop effective disease management strategies can be aided by investigating the molecular mechanisms involved in the host-pathogen interaction between F. circinatum and pine species. Pinus tecunumanii and Pinus patula are two closely related tropical pine species that differ widely in their resistance to F. circinatum challenge, being resistant and susceptible respectively, providing the potential for a useful pathosystem to investigate the molecular responses underlying resistance to F. circinatum. However, no genomic resources are available for P. tecunumanii. Pathogenesis-related proteins are classes of proteins that play important roles in plant-microbe interactions, e.g. chitinases; proteins that break down the major structural component of fungal cell walls. Generating a reference sequence for P. tecunumanii and characterizing pathogenesis related gene families in these two pine species is an important step towards unravelling the pine-F. circinatum interaction.
resultsEight reference based and 12 de novo assembled transcriptomes were produced, for juvenile shoot tissue from both species. EvidentialGene pipeline redundancy reduction, expression filtering, protein clustering and taxonomic filtering produced a 50 Mb shoot transcriptome consisting of 28,621 contigs for P. tecunumanii and a 72 Mb shoot transcriptome consisting of 52,735 contigs for P. patula. Predicted protein sequences encoded by the assembled transcriptomes were clustered with reference proteomes from 92 other species to identify pathogenesis related gene families in P. patula, P. tecunumanii and other pine species.
conclusionsThe P. tecunumanii transcriptome is the first gene catalogue for the species, representing an important resource for studying resistance to the pitch canker pathogen, F. circinatum. This study also constitutes, to our knowledge, the largest index of gymnosperm PR-genes to date.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.