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4 results for “life-forms”

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zenodo44/100

The terrestrial carnivorous plant Utricularia reniformis sheds light on environmental and life-form genome plasticity: Annotation, Gene Ontology and raw data

<p><strong>Description:</strong>&nbsp; In this work, we deeply sequenced (genome and transcriptome of different organs), assembled, and analyzed the 311-Mbp genome of the terrestrial carnivorous plant <em>U. reniformis</em> (Lentibulariaceae). This project presents great importance to the understanding of genomic, evolutive and functional aspects of<em> U. reniformis</em>, which may, with the next-generation sequencing and computational biology approaches shed light to a better understanding not only for the biology and evolution of <em>Utricularia</em> genus, but also for other genera and lineages of the Lentibulariaceae family.&nbsp; Here we present all the raw data generated, including annotation and gene ontology files.</p> <p><strong>External Information</strong></p> <p><a href="https://genomevolution.org/coge/GenomeInfo.pl?gid=54799">Genome Browser</a> avaliable at CoGe Portal (https://genomevolution.org/coge/GenomeInfo.pl?gid=54799)</p> <p><a href="http://https://www.ncbi.nlm.nih.gov/bioproject/290588">GenBank </a><a href="http://https://www.ncbi.nlm.nih.gov/bioproject/290588">Bioproject</a> (https://www.ncbi.nlm.nih.gov/bioproject/290588) for raw genomic and transcriptomic reads</p> <p><a href="https://bv.fapesp.br/en/auxilios/84264/genomics-and-transcriptomics-of-utricularia-reniformis-lentibulariaceae-an-evolutive-and-function/">FAPESP grant website</a> contaning the project abstract and other information.</p> <p><strong>Papers published related to <em>Utricularia reniformis</em> genome</strong></p> <pre><strong>[1]</strong> Silva SR, Diaz YC, Penha HA, Pinheiro DG, Fernandes CC, Miranda VF, MichaelTP, Varani AM. <strong>The Chloroplast Genome of Utricularia reniformis Sheds Light on the Evolution of the ndh Gene Complex of Terrestrial Carnivorous Plants from the Lentibulariaceae Family</strong>. PLoS One. 2016 Oct 20;11(10):e0165176. doi:<strong><a href="https://www.ncbi.nlm.nih.gov/pubmed/27764252">10.1371/journal.pone.0165176</a></strong>. </pre> <pre><strong>[2] </strong>Silva SR, Alvarenga DO, Aranguren Y, Penha HA, Fernandes CC, Pinheiro DG, Oliveira MT, Michael TP, Miranda VFO, Varani AM. <strong>The mitochondrial genome of the terrestrial carnivorous plant Utricularia reniformis (Lentibulariaceae): Structure, comparative analysis and evolutionary landmarks.</strong> PLoS One. 2017 Jul19;12(7):e0180484. doi: <strong><a href="https://www.ncbi.nlm.nih.gov/pubmed/28723946">10.1371/journal.pone.0180484</a></strong>.</pre> <pre><strong>[3] </strong>Silva SR, Moraes AP, Penha HA, Juli&atilde;o MHM, Domingues DS, Michael TP, Miranda VFO, Varani AM. <strong>The Terrestrial Carnivorous Plant Utricularia reniformis Sheds Light on Environmental and Life-Form Genome Plasticity.</strong> Int J Mol Sci. 2019 Dec 18;21(1). pii: E3. doi: <strong><a href="https://www.ncbi.nlm.nih.gov/pubmed/31861318">10.3390/ijms21010003</a></strong>.</pre> <p><strong>Acknowledgements</strong></p> <p>This work was supported by Sao Paulo Research Foundation FAPESP, Grant ID: [1325164-6]</p> <p>&nbsp;</p> <p><strong>---------------------------------------------------------</strong><br> <strong>FILES DESCRIPTION</strong><br> <strong>---------------------------------------------------------</strong><br> <br> ----------------<br> <strong>ANNOT-vFinal.sql: </strong>MySQL database containing all integrated annotation information of Urenif and Ugibba<br> ----------------<br> <strong>TABLE fields description</strong><br> gene_name&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp;&nbsp; gene name generated by EVidence Modeler + PASA<br> length&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp; &nbsp; &nbsp; gene lenght<br> status&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp; &nbsp; &nbsp; duplicate_gene_classifier status (0:singleton, 1:dispersed, 2:proximal, 3: tandem, 4:WGD)<br> product&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; gene product&nbsp;&nbsp; &nbsp;<br> GOterms&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp; Blast2GO/OmicsBox GOterms<br> GO_mapping&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; Blast2GO/OmicsBox GOterms derived from direct mapping (UniProt)<br> GO_annotation&nbsp;&nbsp; &nbsp;&nbsp;&nbsp;&nbsp; Blast2GO/OmicsBox annotated GOterms<br> GO_interpro&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp; Blast2GO/OmicsBox derived from InterProScan<br> EC&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; Blast2GO/OmicsBox EC number<br> EC_name&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp; Blast2GO/OmicsBox enzyme name<br> NOG_annot&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp; EggNOG annotation description<br> NOG_EC&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; EggNOG EC number<br> NOG_GO&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp; EggNOG GOterms<br> NOG_class&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; EggNOG COG/KOG classfication<br> KEGG_Pathway&nbsp;&nbsp; &nbsp;&nbsp;&nbsp;&nbsp; EggNOG KEGG pathyways<br> KEGG_ko&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp; EggNOG KEGG ko<br> CAZy&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; EggNOG CAZy enzymes<br> TAIR_gene&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp;&nbsp; Closest A. thaliana gene name (homologous) TAIR database lasted version<br> TAIR_annot&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; Closest A. thaliana gene product (homologous) TAIR database lasted version&nbsp;&nbsp; &nbsp;<br> ortho&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp;&nbsp;&nbsp; MCL clustering among Vvinifera, Athaliana, and Slycopersicum (S:singleton, C: clustered, Y: shared)<br> ortho_two&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp; MCL clustering among Urenif and Ugibba (S:singleton, C: clustered, Y: shared)<br> -<br> -<br> ----------------<br> <strong>CEGs.zip&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;336 shared and concatenated CEGs from Urenif, U. gibba, Genlisea nigrocaulis, G. hispidula, G. aurea, G. pygmaea, and G. repens.<br> ----------------</p> <p><strong>ProcessRepeats_mod</strong>&nbsp;&nbsp;&nbsp;&nbsp; Modified version of RepeatMasker, ProcessRepeats script for detection of plant evolutionary lineages<br> ----------------</p> <p><strong>----------------------------------------------------------------------------------------------------------------------------------------------<br> <em>Utricularia gibba</em> files<br> ----------------------------------------------------------------------------------------------------------------------------------------------</strong><br> <strong>Ugibba</strong><strong>-no-masked.fa&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; Ugibba genome excluding organellar genomes (provided by Lan et al., 2017)<br> <strong>Ugibba-softmasked.fa</strong>&nbsp;&nbsp; &nbsp; Ugibba genome RepeatMasker softmasked and excluding organellar genomes (provided by Lan et al., 2017)<br> <strong>Ug.collinearity&nbsp;&nbsp;</strong> &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; MCScanX collinearity file<br> <strong>Ug-duplicates.txt</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp; MCScanX duplicate_gene_classifier short report<br> <strong>Ug.gene_type&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; MCScanX duplicate_gene_classifier full report<br> <strong>Ug.tandem&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; Ugibba tandem genes generated by MCScanX tool<br> <strong>Ugibba_annot.annot&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp;&nbsp; Blast2GO/OmicsBox annotation file (eudicotyledons filtered and Viridiplantae GOSlim)&nbsp; <strong>Ugibba_annot-</strong><strong>noclean</strong><strong>.</strong><strong>annot</strong><strong>&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Blast2GO/OmicsBox annotation file (not filtered)<br> <strong>Ugibba</strong><strong>.cDNA</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Ugibba cDNAs fasta file<br> <strong>Ugibba</strong><strong>.CDS&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp; &nbsp; Ugibba CDSs fasta file<br> <strong>Ugibba</strong><strong>-EVM.all-no-TEs-PASA-ANNOTATED.gff3</strong>&nbsp;&nbsp; &nbsp;Ugibba GFF3 file fully annotated (including gene products and GO terms)</p> <p><strong>Ugibba</strong><strong>-EVM.all-no-TEs-PASA.gff3</strong>&nbsp;&nbsp; &nbsp;Ugibba GFF3 file fully annotated (genes only)<br> <strong>Ugibba_export.txt</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Blast2GO/OmicsBox full exported table<br> <strong>Ugibba_fasta.fasta</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Blast2GO/OmicsBox Ugibba fasta proteins containg annotation (product and GO terms)<br> <strong>ugibba_frozen_cleaned-validated.box</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Full Blast2GO/OmicsBox file</p> <p><strong>ugibba_frozen.box</strong>&nbsp;&nbsp; Full Blast2GO/OmicsBox file (containing TEs genes annotation)</p> <p><strong>ugibba_nogs_emapper_annotations.box</strong>&nbsp;&nbsp; Full Blast2GO/OmicsBox EggNOG file (containing TEs genes annotation)</p> <p><strong>Ugibba_GAF.txt</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;GAF file<br> <strong>Ugibba</strong><strong>.gene</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Ugibba gene fasta file<br> <strong>Ugibba_GOstat.txt&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;GOstat file<br> <strong>Ugibba</strong><strong>-PASA-assemblies.fasta&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Ugibba PASA assemblies<br> <strong>Ugibba</strong><strong>-PASA.stats&nbsp;&nbsp;</strong> &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Ugibba annotation STATS<br> <strong>Ugibba</strong><strong>.</strong><strong>prot</strong><strong>&nbsp;&nbsp;</strong> &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Ugibba protein fasta file<br> <strong>Ugibba</strong><strong>-RepeatMasker.gff&nbsp;&nbsp; </strong>&nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Ugibba RepeatMasker gff file<br> <strong>Ugibba</strong><strong>-RepeatMasker.gff3&nbsp;&nbsp;</strong> &nbsp;&nbsp;&nbsp; &nbsp;Ugibba RepeatMasker gff3 file<br> <strong>Ugibba</strong><strong>-RepeatMasker.tbl&nbsp;&nbsp;</strong> &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Ugibba RepeatMasker results<br> <strong>Ugibba</strong><strong>-RepeatMasker-v2.gff3</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Ugibba RepeatMasker gff3 second version file<br> <strong>Ugibba</strong><strong>-RNAseq-assembled.fasta&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Ugibba RNAseq assembled transcriptome (Trinity)<br> <strong>Ugibba_TEs_DANTE_2019.fa&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Ugibba TEs library, detected by REPET and annotated by PASTEC and DANTE<br> <strong>Ugibba_WEGO.txt&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;WEGO file</p> <p><strong>----------------------------------------------------------------------------------------------------------------------------------------------<br> <em>Utricularia reniformis</em> files<br> ----------------------------------------------------------------------------------------------------------------------------------------------</strong><br> <strong>Urenif</strong><strong>-no-masked.fa&nbsp;&nbsp;</strong> &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif genome excluding organellar genomes<br> <strong>Urenif</strong><strong>-</strong><strong>softmasked</strong><strong>.fa</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif genome RepeatMasker softmasked and excluding organellar genomes<br> <strong>Ur.collinearity&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;MCScanX collinearity file<br> <strong>Ur-duplicates.txt&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;MCScanX duplicate_gene_classifier short report<br> <strong>Ur.gene_type</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;MCScanX duplicate_gene_classifier full report<br> <strong>Ur.tandem</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif tandem genes generated by MCScanX tool<br> <strong>Urenif_annot.annot</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Blast2GO/OmicsBox annotation file (eudicotyledons filtered and Viridiplantae GOSlim)<br> <strong>Urenif_annot-</strong><strong>noclean</strong><strong>.</strong><strong>annot</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Blast2GO/OmicsBox annotation file (not filtered)<br> <strong>Urenif</strong><strong>.cDNA</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif cDNAs fasta file<br> <strong>Urenif</strong><strong>.CDS&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif cDNAs fasta file<br> <strong>Urenif</strong><strong>-EVM.all-no-TEs-PASA-ANNOTATED.gff3</strong>&nbsp;&nbsp; &nbsp;Urenif GFF3 file fully annotated (including gene products and GO terms)</p> <p><strong>Urenif</strong><strong>-EVM.all-no-TEs-PASA.gff3</strong>&nbsp;&nbsp; &nbsp;Urenif GFF3 file fully annotated (genes only)<br> <strong>Urenif_export.txt</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Blast2GO/OmicsBox full exported table<br> <strong>Urenif_fasta.fasta</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Blast2GO/OmicsBox Urenif fasta proteins containg annotation (product and GO terms)<br> <strong>urenif_frozen_cleaned-validated.box</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Full Blast2GO/OmicsBox file</p> <p><strong>urenif_frozen.box</strong>&nbsp;&nbsp; Full Blast2GO/OmicsBox file (containing TEs genes annotation)</p> <p><strong>urenif_nogs_emapper_annotations.box</strong>&nbsp;&nbsp; Full Blast2GO/OmicsBox EggNOG file (containing TEs genes annotation)<br> <strong>Urenif_GAF.txt&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;GAF file<br> <strong>Urenif</strong><strong>.gene</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif gene fasta file<br> <strong>Urenif_GOStat.txt&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;GOstat file<br> <strong>Urenif</strong><strong>-PASA-assemblies.fasta</strong>&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif PASA assemblies<br> <strong>Urenif</strong><strong>-PASA.stats&nbsp;&nbsp;</strong> &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif annotation STATS<br> <strong>Urenif</strong><strong>.</strong><strong>prot</strong><strong>&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif protein fasta file<br> <strong>Urenif</strong><strong>-RepeatMasker.gff&nbsp;&nbsp; </strong>&nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif RepeatMasker gff file<br> <strong>Urenif</strong><strong>-RepeatMasker.gff3&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif RepeatMasker gff3 file<br> <strong>Urenif</strong><strong>-RepeatMasker.tbl&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif RepeatMasker results<br> <strong>Urenif</strong><strong>-RepeatMasker-v2.gff3&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif RepeatMasker gff3 second version file<br> <strong>Urenif</strong><strong>-RNAseq-assembled.fasta&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif RNAseq assembled transcriptome (Trinity)<br> <strong>Urenif_TEs_DANTE_2019.fa&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;Urenif TEs library, detected by REPET and annotated by PASTEC and DANTE<br> <strong>Urenif_WEGO.txt&nbsp;</strong>&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;&nbsp;&nbsp; &nbsp;WEGO file<br> <strong>----------------------------------------------------------------------------------------------------------------------------------------------<br> ----------------------------------------------------------------------------------------------------------------------------------------------</strong></p>

opencc-by-4.0Oct 2019View details →
dryad28/100

Diversification of Crassula: Phylogenetic analysis and life-form traits

<p>These datasets are associated with the published paper - "Evidence linking life form to a major shift in diversification rate in <em>Crassula</em>" (DOI:10.1002/ajb2.1797) </p> <p><i>Crassula</i> L. (Crassulaceae) is a characteristic element of the southern African flora, occurring in a wide range of habitats, and it exhibits a remarkable diversity of life forms. However, whether any particular life-form trait has shaped species diversification in <em>Crassula </em>has remained unexplored. Our study aimed to investigate diversification patterns within Crassula and identify potential links to its life-form evolution. A phylogenetic tree of 140 <em>Crassula </em>taxa was reconstructed using plastid and nuclear loci, and dated based on the nuclear DNA information only. We reconstructed ancestral life-form characters to estimate the evolutionary trends of ecophysiological change, and subsequently estimated net diversification rates. The datasets presented here summarise the life-form classification (incl. life-history strategies and growth forms) of all <em>Crassula </em>species and the data from our phylogenetic analysis.</p>

opencc-zeroJan 2022View details →
zenodo28/100

Raw data of bamboo invasion alters Collembola community composition varying with life-forms

<p>Sequencing data of soil Collembola</p>

opencc-by-4.0Dec 2022View details →
dryad28/100

Diversification of Crassula: Phylogenetic analysis and life-form traits

Open the record for dataset details and reuse information.

publicJan 2022View details →

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