10.5061/DRYAD.0BK52
Kovi, Mallikarjuna Rao
Norwegian University of Life Sciences
Amdahl, Helga
Norwegian University of Life Sciences
Alsheikh, Muath
Norwegian University of Life Sciences
Rognli, Odd Arne
Norwegian University of Life Sciences
Data from: De novo and reference transcriptome assembly of transcripts
expressed during flowering provide insight into seed setting in tetraploid
red clover
Dryad
dataset
2017
denovo assembly
Plant breeding
red clover
Trifolium pratense
plant sciences
RNAseq
2017-11-30T00:00:00Z
2017-11-30T00:00:00Z
en
https://doi.org/10.1038/srep44383
303923339 bytes
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CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
Red clover (Trifolium pratense L.) is one of the most important legume
forage species in temperate livestock agriculture. Tetraploid red clover
cultivars are generally producing less seed than diploid cultivars.
Improving the seed setting potential of tetraploid cultivars is necessary
to utilize the high forage quality and environmentally sustainable
nitrogen fixation ability of red clover. In the current study, our aim was
to identify candidate genes involved in seed setting. Two genotypes,
‘Tripo’ with weak seed setting and ‘Lasang’ with strong seed setting were
selected for transcriptome analysis. De novo and reference based analyses
of transcriptome assemblies were conducted to study the global
transcriptome changes from early to late developmental stages of flower
development of the two contrasting red clover genotypes. Transcript
profiles, gene ontology enrichment and KEGG pathway analysis indicate that
genes related to flower development, pollen pistil interactions,
photosynthesis and embryo development are differentially expressed between
these two genotypes. A significant number of genes related to pollination
were overrepresented in ‘Lasang’, which might be a reason for its good
seed setting ability. The candidate genes detected in this study might be
used to develop molecular tools for breeding tetraploid red clover
varieties with improved seed yield potentials.
Tripo42_redclover_denovoassembly.TrinityDe novo assembly for genotype
"Tripo" generated by Trinity
programTripo55_redclover_denovoassembly.TrinityDe novo assembly for
genotype "Tripo55" derived from Trinity
programLork77_redclvoer_denovoassembly.TrinityLork108_redclover_denovovassembly.TrinityDe novo assembly for genotype "Lork108" derived from Trinity programTripo_redclover_GFF3Annotation file (GFF3) for genotype Tripo generated by GFF3 python script (script can be found at the end)Tripo_redclover_sorted.gff3Lork_redclover_GFF3Annotation file (GFF3) for genotype "Lork" generated by GFF3 python script (script can be found at the end)Lork_redclover_sorted.gff3Make_GFF3_Python scriptPython script to generate Annotation files (GFF3) for genotypes Tripo (Tripo_redclover_sorted.gff3) and Lork (Lork_redclover_sorted.gff3).Make_GFF3_KMR.py
Norway