Genome Assembly and annotation of callosobruchus maculatus (PubMed ID:31740847)
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB30475 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Callosobruchus maculatus whole larvae
| PRJNA79579 | ENA
Project description:Callosobruchus maculatus Raw sequence reads
| PRJNA308906 | ENA
Project description:RNA from Xiphophorus maculatus (X. maculatus) are isolated and sequenced for annotation of enhanced X. maculatus genome
2017-11-28 | GSE107449 | GEO
Project description:Callosobruchus maculatus Transcriptome or Gene expression
| PRJNA725686 | ENA
Project description:Callosobruchus maculatus Transcriptome or Gene expression
| PRJNA293393 | ENA
Project description:The complete mitochondrial genome of Callosobruchus maculatus
| PRJNA673044 | ENA
Project description:Objective: Sexually dimorphic phenotypes arise largely from sex-specific gene expression, which has mainly been characterized in sexually naïve adults. However, we expect sexual dimorphism in transcription to be dynamic and dependent on factors such as reproductive status. Mating induces many behavioral and physiological changes distinct to each sex and is therefore expected to activate regulatory changes in many sex-biased genes. Methods: Using RNA-seq we first characterized sexual dimorphism in gene expression, for the first time in Callosobruchus maculatus seed beetles. We then examined how females and males respond to mating and how it affects sex-biased expression, both in more sex-limited (abdomen) and sex-shared (head and thorax) tissues. Results: Mating responses were largely sex-specific and, as expected, females showed more numerous changes compared to males. Of the sex-biased genes present in virgins, 16% (1,041 genes) in the abdomen and 17% (243 genes) in the head and thorax altered their relative expression between the sexes. Sex-bias status changed in 2% of the genes in the abdomen and 4% in the head and thorax following mating. Mating responses involved de-feminization of females and, to a lesser extent, de-masculinization of males relative to their virgin state: mating decreased rather than increased dimorphic expression of sex-biased genes.
2016-12-23 | GSE92855 | GEO
Project description:Callosobruchus maculatus strain:south india Transcriptome or Gene expression
| PRJNA309272 | ENA
Project description:Despite their unparalleled biodiversity, the genomic resources available for beetles (Coleoptera) remain relatively scarce. We present an integrative and high quality annotated transcriptome of the beetle Callosobruchus maculatus, an important and cosmopolitan agricultural pest as well as an emerging model species in ecology and evolutionary biology. Using Illumina sequencing technology, we sequenced 492 million read pairs generated from 51 samples of different developmental stages (larvae, pupae and adults) of C. maculatus. Reads were de novo assembled using the Trinity software, into a single combined assembly as well as into three separate assemblies based on data from the different developmental stages. The combined assembly generated 218,192 transcripts and 145,883 putative genes. Putative genes were annotated with the Blast2GO software and the Trinotate pipeline. In total, 33,216 putative genes were successfully annotated using Blastx against the Nr (non-redundant) database and 13,382 were assigned to 34,100 Gene Ontology (GO) terms. We classified 5,475 putative genes into Clusters of Orthologous Groups (COG) and 116 metabolic pathways maps were predicted based on the annotation. Our analyses suggested that the transcriptional specificity increases with ontogeny. For example, out of 33,216 annotated putative genes, 51 were only expressed in larvae, 63 only in pupae and 171 only in adults. Our study illustrates the importance of including samples from several developmental stages when the aim is to provide an integrative and high quality annotated transcriptome. Our results will represent an invaluable resource for those working with the ecology, evolution and pest control of C. maculatus, as well for comparative studies of the transcriptomics and genomics of beetles more generally.
| S-EPMC4956038 | biostudies-literature