Comparative Biochemistry and Physiology Part D: Genomics and Proteomics This is an RSS file. You can use it to subscribe to this data in your favourite RSS reader or to display this data on your own website or blog.

Transcriptomic response of rainbow trout (Oncorhynchus mykiss) skeletal muscle to Flavobacterium psychrophilum
This study offers an integrative analysis of the skeletal muscle response to F. psychrophilum infection and reveals unknown aspects of its pathogenesis in rainbow trout.Graphical abstract (Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics)
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - May 29, 2019 Category: Genetics & Stem Cells Source Type: research

Systemic identification and analyses of genes potentially involved in chemosensory in the devastating tea pest Basilepta melanopus
In this study, we produced a transcriptome derived from dissected antennae from B. melanopus using high-throughput sequencing. We identified gene families that are potentially involved in odorant reception and detection, including unigenes encoding 63 odorant receptors (ORs), 16 gustatory receptors (GRs), 18 ionotropic receptors (IRs), four sensory neuron membrane proteins (SNMPs), 46 odorant binding proteins (OBPs), and 19 chemosensory proteins (CSPs). Analyses of tissue expression profiles revealed that all 63 OR transcripts, 14 antennal IRs, one SNMP and six OBPs were predominately expressed in antennae. Real-time quant...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - May 28, 2019 Category: Genetics & Stem Cells Source Type: research

Comparative analysis of growth performance and liver transcriptome response of juvenile Ancherythroculter nigrocauda fed diets with different protein levels
This study aimed at investigating the effects of dietary protein levels on the growth and liver transcriptome in juvenile Ancherythroculter nigrocauda. Six semi-purified diets were formulated containing 25 (control), 30, 35, 40, 45, and 50% protein. Each diet was fed to three groups of 35 fish (mean initial weight: 5.86 ± 0.10 g) for 56 days. The rate of weight gain and specific growth rate increased with dietary protein levels from 25% to 40%, but remained unchanged when fed with 45 or 50% dietary protein. The feed conversion ratio was significantly influenced by the dietary protein levels, being the lowest in fi...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - May 26, 2019 Category: Genetics & Stem Cells Source Type: research

Editorial Board
Publication date: June 2019Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics, Volume 30Author(s): (Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics)
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - May 16, 2019 Category: Genetics & Stem Cells Source Type: research

Candidate genes coding for odorant binding proteins and chemosensory proteins identified from dissected antennae and mouthparts of the southern green stink bug Nezara viridula
In this study, we identified candidate genes encoding putative OBPs and CSPs in N. viridula by generating transcriptomes from dissected antennae and mouthparts. In total, 58 unigenes were identified coding for OBPs (45 Classic OBPs, nine Plus-C OBPs and four Minus-C OBPs) and 24 unigenes coding for CSPs. Expression profiles of OBP- and CSP -encoding genes were compared between antennae and mouthparts based on FKPM values. Candidates for antenna-predominant OBPs and CSPs were selected for real-time quantitative PCR analyses. Analyses of tissue expression profiles revealed that 26 OBP-encoding genes, and four CSP genes were ...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - May 13, 2019 Category: Genetics & Stem Cells Source Type: research

Transcriptome mining of apoptotic mechanisms in response to density and functional diets in Oncorhynchus mykiss and role in homeostatic regulation
Publication date: Available online 11 May 2019Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Camille Détrée, Ana Teresa GonçalvesAbstractHusbandry conditions often expose fish to several stressors, compromising organism's global homeostasis, which has consequences on aquaculture production. In order to depict intestinal homeostatic responses to deleterious conditions and the potential beneficial effects of functional diets in aquaculture fish, the effects of chronic suboptimal density condition on the neuro-immune endocrine system of rainbow trout was investigated through a tra...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - May 13, 2019 Category: Genetics & Stem Cells Source Type: research

Evolutionary significance and regulated expression of Tdrd family genes in gynogenetic Japanese flounder (Paralichthys olivaceus)
Publication date: Available online 7 May 2019Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Bo Wang, Huizhen Wang, Haofei Song, Chaofan Jin, Meiting Peng, Chen Gao, Fan Yang, Xinxin Du, Jie Qi, Quanqi Zhang, Jie ChengAbstractTudor domain-containing proteins (TDRDs) are highly conserved among organisms and have a function in gonads to regulate gametogenesis and genome stability through the piwi-interacting RNA (piRNA) pathway. With diverse sexual development patterns in teleost species, the evolution and function of Tdrd genes among teleosts remain unclear. Here, we identified and ...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - May 8, 2019 Category: Genetics & Stem Cells Source Type: research

Transcriptome analysis of body wall reveals growth difference between the largest and smallest individuals in the pure and hybrid populations of Apostichopus japonicus
In this study, three Apostichopus japonicus families were constructed and screened into the weight of smallest and largest, which included Russian, Chinese, and their hybrids (RC). We examined the transcriptional profiles of hybrid (RC) and purebred (CC and RR). A total of 49.69 Gb clean reads were obtained, and the Q30 base percentage was above 90.47%. A total of 5191 novel genes were discovered, of which 2592 genes were annotated. Differentially expressed genes (DEGs) were identified, and functional annotation and enrichment analysis were performed. Approximately 1874 DEGs were screened in the Chinese sea cucumber (CC) d...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - May 3, 2019 Category: Genetics & Stem Cells Source Type: research

Comparative studies on duplicated tdrd7 paralogs in teleosts: Molecular evolution caused neo-functionalization
In this study, two teleost tdrd7 genes (tdrd7a and tdrd7b) were identified in the transcriptome of Japanese flounder (Paralichthys olivaceus). Through genomic structure, phylogenetic, synteny analysis and online bioinformatic mining of tdrd7 duplications in other selected species, we confirmed that tdrd7a/7b were originated from the teleost-specific 3R-WGD. The tdrd7a is specific to teleost except for spotted gar. The tdrd7a showed higher molecular evolution rate than tdrd7b with longer branch-length in the phylogenetic tree and multiple positively selected sites. Interestingly, it showed gonad specific expression pattern ...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - April 27, 2019 Category: Genetics & Stem Cells Source Type: research

Proteomic analysis of the fast-twitch muscle of pacu (Piaractus mesopotamicus) after prolonged fasting and compensatory growth
Publication date: Available online 24 April 2019Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Maria Laura Gabriel Kuniyoshi, Rafaela Nunes Da Silva-Gomes, José Cavalcante De Souza Vieira, Mariana Casemiro Hessel, Edson Assunção Mareco, Vander Bruno Dos Santos, Robson Francisco Carvalho, Pedro De Magalhães Padilha, Maeli Dal-Pai-SilvaAbstractProtocols that improve growth performance in fish while assuring product quality are important for aquaculture. Fasting followed by refeeding may promote compensatory growth, thus optimizing growth performance. During fasting and refeeding...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - April 25, 2019 Category: Genetics & Stem Cells Source Type: research

Disentangling the immune response and host-pathogen interactions in Francisella noatunensis infected Atlantic cod
Publication date: Available online 13 April 2019Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Monica Hongrø Solbakken, Sissel Jentoft, Trond Reitan, Helene Mikkelsen, Tone F. Gregers, Oddmund Bakke, Kjetill S. Jakobsen, Marit SeppolaAbstractThe genetic repertoire underlying teleost immunity has been shown to be highly variable. A rare example is Atlantic cod and its relatives Gadiformes that lacks a hallmark of vertebrate immunity: Major Histocompatibility Complex class II. No immunological studies so far have fully unraveled the functionality of this particular immune system. T...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - April 13, 2019 Category: Genetics & Stem Cells Source Type: research

Genome-wide identification of ATP-binding cassette transporters and expression profiles in the Asian citrus psyllid, Diaphorina citri, exposed to imidacloprid
In this study, the ABC transporter genes were identified based on the transcriptome and genome database of D. citri. A total of 44 DcitABC transporters were identified and grouped into 8 subfamilies (ABCA-ABCH), including 4 DcitABCAs, 4 Bs, 5 Cs, 2 Ds, 1 E, 3 Fs, 15 Gs and 10 Hs, respectively. Phylogenetic analysis of ABC transporters revealed a close relationship between D. citri and Laodelphax striatellus. qPCR analyses showed that several DcitABC transporters were highly expressed in fat body, midgut and the hindgut with Malpighian tubules. In particular, DcitABCG11 and DcitABCG14 were most highly expressed in the hindg...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - April 12, 2019 Category: Genetics & Stem Cells Source Type: research

Identification and characterization of microRNAs in the gonad of Trachinotus ovatus using Solexa sequencing
Publication date: Available online 11 April 2019Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Pingping He, Pinyuan Wei, Xiaohan Chen, Yong Lin, Jinxia PengAbstractThe Trachinotus ovatus (T. ovatus) reach sexual maturity as late as 4–5 years, and there are no obvious morphology differences between males and females, even at maturity, making the selection of male and female parents for selective breeding difficult. To examine the potential regulatory mechanism of sexual differentiation, we conducted a microRNAs (miRNAs) analysis on the ovaries and testes of T. ovatus. A total o...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - April 12, 2019 Category: Genetics & Stem Cells Source Type: research

Phylogenomic analyses and divergence time estimation of Elateroidea (Coleoptera) based on RNA-Seq data
Publication date: Available online 5 April 2019Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Danilo T. Amaral, Isabel A.S. Bonatelli, Ricardo Cerri, Vadim R. VivianiAbstractBioluminescence, the emission of visible light in a living organism, is an intriguing phenomenon observed in different species and environments. In terrestrial organisms, the bioluminescence is observed mainly in beetles of the Elateroidea superfamily (Coleoptera). Several phylogenetic studies have been used different strategies to propose a scenario for the origin and evolution of the bioluminescence within t...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - April 6, 2019 Category: Genetics & Stem Cells Source Type: research

Comparative transcriptome analysis reveals differentially expressed genes in the Asian citrus psyllid (Diaphorina citri) upon heat shock
This study provides a preliminary insight into the transcriptional response of D. citri to heat stress and provides a foundation for the future functional validation of genes involved in thermotolerance in this important insect pest in tropical and subtropical regions.Graphical abstract (Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics)
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - April 2, 2019 Category: Genetics & Stem Cells Source Type: research