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Transcriptome Analysis and Discovery of Genes Relevant to Development in Bradysia odoriphaga at Three Developmental Stages
- Source :
- PLoS ONE, Vol 11, Iss 2, p e0146812 (2016), PLoS ONE
- Publication Year :
- 2016
- Publisher :
- Public Library of Science (PLoS), 2016.
-
Abstract
- Bradysia odoriphaga (Diptera: Sciaridae) is the most important pest of Chinese chive (Allium tuberosum) in Asia; however, the molecular genetics are poorly understood. To explore the molecular biological mechanism of development, Illumina sequencing and de novo assembly were performed in the third-instar, fourth-instar, and pupal B. odoriphaga. The study resulted in 16.2 Gb of clean data and 47,578 unigenes (≥125 bp) contained in 7,632,430 contigs, 46.21% of which were annotated from non-redundant protein (NR), Gene Ontology (GO), Clusters of Orthologous Groups (COG), Eukaryotic Orthologous Groups (KOG), and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases. It was found that 19.67% of unigenes matched the homologous species mainly, including Aedes aegypti, Culex quinquefasciatus, Ceratitis capitata, and Anopheles gambiae. According to differentially expressed gene (DEG) analysis, 143, 490, and 309 DEGs were annotated as involved in the developmental process in the GO database respectively, in the comparisons of third-instar and fourth-instar larvae, third-instar larvae and pupae, and fourth-instar larvae and pupae. Twenty-five genes were closely related to these processes, including developmental process, reproduction process, and reproductive organs development and programmed cell death (PCD). The information of unigenes assembled in B. odoriphaga through transcriptome and DEG analyses could provide a detailed genetic basis and regulated information for elaborating the developmental mechanism from the larval, pre-pupal to pupal stages of B. odoriphaga.
- Subjects :
- 0106 biological sciences
0301 basic medicine
Sequence assembly
Gene Expression
lcsh:Medicine
01 natural sciences
Genome
Biochemistry
Transcriptome
Larvae
Sciaridae
lcsh:Science
Genetics
Multidisciplinary
Insect Metamorphosis
biology
Gene Ontologies
Messenger RNA
Pupa
Gene Expression Regulation, Developmental
High-Throughput Nucleotide Sequencing
Genomics
Insects
Nucleic acids
Larva
Insect Proteins
Transcriptome Analysis
Research Article
medicine.medical_specialty
Arthropoda
Chive
03 medical and health sciences
Molecular genetics
medicine
Animals
Gene Regulation
KEGG
Illumina dye sequencing
Plant Diseases
Metamorphosis
Diptera
Gene Expression Profiling
lcsh:R
Organisms
Biology and Life Sciences
Computational Biology
Molecular Sequence Annotation
Pupae
biology.organism_classification
Genome Analysis
Invertebrates
Gene expression profiling
030104 developmental biology
Gene Ontology
RNA
lcsh:Q
Zoology
Entomology
010606 plant biology & botany
Developmental Biology
Subjects
Details
- Language :
- English
- ISSN :
- 19326203
- Volume :
- 11
- Issue :
- 2
- Database :
- OpenAIRE
- Journal :
- PLoS ONE
- Accession number :
- edsair.doi.dedup.....4291f9655bd44df872b588091be97b40