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Progress Towards Plant Community Transcriptomics: Pilot RNA-Seq Data from 24 Species of Vascular Plants at Harvard Forest
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
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BUSCO: Assessing Genome Assembly and Annotation Completeness
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Variation in transcriptome size: are we getting the message?
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The high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution
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Transcriptome and organellar sequencing highlights the complex origin and diversification of allotetraploid Brassica napus
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The global biogeography of polyploid plants
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The potential of genomics for restoring ecosystems and biodiversity
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Soil microbiomes and climate change
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One thousand plant transcriptomes and the phylogenomics of green plants
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De novo transcriptome assemblies of four accessions of the metal hyperaccumulator plant Noccaea caerulescens
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Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing
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Cross-biome metagenomic analyses of soil microbial communities and their functional attributes
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Shifting plant species composition in response to climate change stabilizes grassland primary production
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Global change effects on plant communities are magnified by time and the number of global change factors imposed
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Recent responses to climate change reveal the drivers of species extinction and survival
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Polyploidy, the Nucleotype, and Novelty: The Impact of Genome Doubling on the Biology of the Cell
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Consequences of intraspecific variation in seed dispersal for plant demography, communities, evolution and global change
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Plant genome size variation: bloating and purging DNA
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TagDust—a program to eliminate artifacts from next generation sequencing data
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SOAPdenovo-Trans: de novo transcriptome assembly with short RNA-Seq reads
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Reimagining NEON Operations: We Can Do Better
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The genome sequence of sweet cherry (Prunus avium) for use in genomics-assisted breeding
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Quantifying Whole Transcriptome Size, a Prerequisite for Understanding Transcriptome Evolution Across Species: An Example from a Plant Allopolyploid
inferredcites →https://doi.org/10.1093/gbe/evx169openalex-snapshot
The Huperzia selago Shoot Tip Transcriptome Sheds New Light on the Evolution of Leaves
inferredcites →https://doi.org/10.1093/gigascience/giz126openalex-snapshot
Access to RNA-sequencing data from 1,173 plant species: The 1000 Plant transcriptomes initiative (1KP)
inferredcites →https://doi.org/10.1093/molbev/msn187openalex-snapshot
Multiple Paleopolyploidizations during the Evolution of the Compositae Reveal Parallel Patterns of Duplicate Gene Retention after Millions of Years
inferredcites →https://doi.org/10.1093/nar/gkm1000openalex-snapshot
Database resources of the National Center for Biotechnology Information
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The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools
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Phytozome: a comparative platform for green plant genomics
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Fastq-pair: efficient synchronization of paired-end fastq files
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TransRate: reference-free quality assessment of de novo transcriptome assemblies
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The role of transcriptomes linked with responses to light environment on seedling mortality in a subtropical forest, China
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Transcriptomic responses to conspecific and congeneric competition in co‐occurring Trifolium
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Neighbourhood defence gene similarity effects on tree performance: a community transcriptomic approach
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Community transcriptomics, genomics and the problem of species co‐occurrence
inferredcites →https://doi.org/10.1111/1755-0998.12163openalex-snapshot
Genomics of C ompositae crops: reference transcriptome assemblies and evidence of hybridization with wild relatives
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The bien r package: A tool to access the Botanical Information and Ecology Network (BIEN) database
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Ecological genomics meets community‐level modelling of biodiversity: mapping the genomic landscape of current and future environmental adaptation
inferredcites →https://doi.org/10.1111/ele.13269openalex-snapshot
Temperature shapes opposing latitudinal gradients of plant taxonomic and phylogenetic β diversity
inferredcites →https://doi.org/10.1111/ele.13402openalex-snapshot
Polyploid plants have faster rates of multivariate niche differentiation than their diploid relatives
inferredcites →https://doi.org/10.1111/j.1755-0998.2010.02859.xopenalex-snapshot
Establishing genomic tools and resources for Guizotia abyssinica (L.f.) Cass.—the development of a library of expressed sequence tags, microsatellite loci, and the sequencing of its chloroplast genome
inferredcites →https://doi.org/10.1111/mec.14131openalex-snapshot
Genomic inferences of domestication events are corroborated by written records in Brassica rapa
inferredcites →https://doi.org/10.1111/nph.13191openalex-snapshot
The Chromosome Counts Database ( CCDB ) – a community resource of plant chromosome numbers
inferredcites →https://doi.org/10.1111/nph.13410openalex-snapshot
Genomic variation across landscapes: insights and applications
inferredcites →https://doi.org/10.1111/tpj.13553openalex-snapshot
Diverse genome organization following 13 independent mesopolyploid events in Brassicaceae contrasts with convergent patterns of gene retention
inferredcites →https://doi.org/10.1111/tpj.13799openalex-snapshot
The genetics underlying natural variation of plant–plant interactions, a beloved but forgotten member of the family of biotic interactions
inferredcites →https://doi.org/10.1126/sciadv.aaz0414openalex-snapshot
The commonness of rarity: Global and future distribution of rarity across land plants
inferredcites →https://doi.org/10.1126/science.aap9516openalex-snapshot
A global atlas of the dominant bacteria found in soil
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Evolution as an ecosystem process: insights from genomics
inferredcites →https://doi.org/10.1186/1471-2164-12-99openalex-snapshot
De novo characterization of the gametophyte transcriptome in bracken fern, Pteridium aquilinum
inferredcites →https://doi.org/10.1186/s12864-019-5965-xopenalex-snapshot
Impact of sequencing depth and technology on de novo RNA-Seq assembly
inferredcites →https://doi.org/10.1186/s13059-016-0908-1openalex-snapshot
Evolution of plant genome architecture
inferredcites →https://doi.org/10.1186/s13059-018-1497-yopenalex-snapshot
Draft genome sequence of wild Prunus yedoensis reveals massive inter-specific hybridization between sympatric flowering cherries
inferredcites →https://doi.org/10.1371/journal.pone.0050226openalex-snapshot
Evaluating Methods for Isolating Total RNA and Predicting the Success of Sequencing Phylogenetically Diverse Plant Transcriptomes
inferredcites →https://doi.org/10.1371/journal.pone.0184528openalex-snapshot
Development of hop transcriptome to support research into host-viroid interactions
inferredcites →https://doi.org/10.1534/g3.112.003871openalex-snapshot
Allele Identification for Transcriptome-Based Population Genomics in the Invasive PlantCentaurea solstitialis
inferredcites →https://doi.org/10.32942/osf.io/kac45openalex-snapshot
The Open Traits Network: Using Open Science principles to accelerate trait-based science across the Tree of Life
inferredcites →https://doi.org/10.3390/genes8110317openalex-snapshot
Sequencing and De Novo Assembly of the Toxicodendron radicans (Poison Ivy) Transcriptome
inferredcites →https://doi.org/10.3732/ajb.1100313openalex-snapshot
Genomics of Compositae weeds: EST libraries, microarrays, and evidence of introgression
inferredcites →https://doi.org/10.3732/ajb.1600113openalex-snapshot
Most Compositae (Asteraceae) are descendants of a paleohexaploid and all share a paleotetraploid ancestor with the Calyceraceae
inferredcites →https://doi.org/10.3732/apps.1600128openalex-snapshot
An efficient field and laboratory workflow for plant phylotranscriptomic projects
inferredcites →https://doi.org/10.4137/ebo.s5861openalex-snapshot
EvoPipes.net: Bioinformatic Tools for Ecological and Evolutionary Genomics
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1002/aps3.11398openalex-snapshot
TagSeq for gene expression in non‐model plants: A pilot study at the Santa Rita Experimental Range NEON core site
inferred← citeshttps://doi.org/10.1002/aps3.11409openalex-snapshot
Pilot RNA‐seq data from 24 species of vascular plants at Harvard Forest
inferred← citeshttps://doi.org/10.3390/f13111806openalex-snapshot
Transcriptome Analysis Reveals Putative Genes Involved in the Lipid Metabolism of Chaulmoogra Oil Biosynthesis in Carpotroche brasiliensis (Raddi) A.Gray, a Tropical Tree Species
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