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.

RNA-sequencing of a citrus bud-feeder, Podagricomela weisei (Coleoptera: Chrysomelidae), reveals xenobiotic metabolism/core RNAi machinery-associated genes and conserved miRNAs
In this study, we completed the deep sequencing of the P. weisei transcriptome to identify factors potentially involved in xenobiotic metabolism and the core RNAi machinery. The sequencing of the P. weisei transcriptome generated>27 million clean reads, ultimately yielding 90,410 unigenes with an N50 of 1065 bp. The unigenes were used as queries to search the Nr database, which revealed that 21,847 unigenes were homologous to known genes in various species. Transcripts encoding genes involved in xenobiotic metabolism were identified, including genes encoding cytochrome P450 monooxygenase (P450, 47 unigenes), glutat...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - January 15, 2019 Category: Genetics & Stem Cells Source Type: research

Genome-wide identification and expression profiling of the Wnt gene family in three bivalve molluscs
Publication date: Available online 15 January 2019Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Sinuo Liu, Xiaomei Chen, Shanshan Lian, Xiaoting Dai, Naina Hu, Fengmei Zhang, Lingling Zhang, Zhenmin Bao, Shi WangAbstractCellular signaling initiated by various secreted, cysteine-rich Wnt proteins plays essential roles in regulating animal development and cell stemness. By virtue of its functional diversity and importance, the Wnt gene family has received substantial research interests in a variety of animal species, from invertebrates to vertebrates. However, for bivalve molluscs,...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - January 15, 2019 Category: Genetics & Stem Cells Source Type: research

Proteomic analysis of adult Galeruca daurica (Coleoptera: Chrysomelidae) at different stages during summer diapause
Publication date: Available online 15 January 2019Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Hong-Yue Ma, Xiao-Rong Zhou, Yao Tan, Bao-Ping PangAbstractGaleruca daurica is a new pest causing great losses in the Inner Mongolian grasslands of China. The adults enter obligatory diapause during summer. However, the molecular mechanism of summer diapause remains unknown. We used iTRAQ to conduct proteomic analysis of adult G. daurica at the pre-diapause (PD), diapause (D) and post-diapause (TD) stages during summer diapause. A total of 139 and 118 differentially expressed proteins ...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - January 15, 2019 Category: Genetics & Stem Cells Source Type: research

Genome-wide identification of the Na+/H+ exchanger gene family in Lateolabrax maculatus and its involvement in salinity regulation
Publication date: Available online 9 January 2019Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Yang Liu, Haishen Wen, Xin Qi, Xiaoyan Zhang, Kaiqiang Zhang, Hongying Fan, Yuan Tian, Yanbo Hu, Yun LiAbstractNa+/H+ exchangers (NHEs) are one of the major groups of transmembrane proteins that play crucial roles in pH homeostasis, cell volume regulation and Na+ transport in animals. In our study, twelve NHEs were identified from transcriptomic and genomic databases of Lateolabrax maculatus. The evolutionary footprint of each NHE gene was revealed via the analysis of phylogenetic tree,...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - January 10, 2019 Category: Genetics & Stem Cells Source Type: research

Investigation of graded levels of soybean meal diets for red drum, Sciaenops ocellatus, using quantitative PCR derived biomarkers
Publication date: Available online 8 January 2019Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Aaron M. Watson, Fabio Casu, Daniel W. Bearden, Justin Yost, Michael R. Denson, T. Gibson Gaylord, Paul Anderson, Paul A. Sandifer, John W. Leffler, Frederic T. BarrowsAbstractA twelve-week feeding trial was conducted to examine potential metabolic and gene expression changes that occur in juvenile red drum, Sciaenops ocellatus, fed diets with increasing soybean meal inclusion. Significant reduction in fish performance characteristics (feed consumption, weight gain, final weight) was ob...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - January 8, 2019 Category: Genetics & Stem Cells Source Type: research

Peptidomic analysis of the host-defense peptides in skin secretions of Rana graeca provides insight into phylogenetic relationships among Eurasian Rana species
Publication date: Available online 27 December 2018Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Milena Mechkarska, Jolanta Kolodziejek, Vishal Musale, Laurent Coquet, Jérôme Leprince, Thierry Jouenne, Norbert Nowotny, J. Michael ConlonAbstractPeptidomic analysis of norepinephrine-stimulated skin secretions from the Greek stream frog Rana graeca Boulenger, 1891 led to the identification and structural characterization of a range of host-defense peptides. These comprised brevinin-1GRa, brevinin-1GRb and an N-terminally extended form of brevinin-1GRb, ranatuerin-2GR together with...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - December 29, 2018 Category: Genetics & Stem Cells Source Type: research

Metabolic response of longitudinal muscles to acute hypoxia in sea cucumber Apostichopus japonicus (Selenka): A metabolome integrated analysis
Publication date: Available online 27 December 2018Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Li Li, Muyan Chen, Kenneth B. StoreyAbstractHypoxia is a severe problem in aquatic environments worldwide and has caused mass mortality of sea cucumbers (& other species) for decades, seriously affecting the sustainable development of aquaculture. Investigations of the metabolic disruptions and biochemical responses associated with acute hypoxia stress in sea cucumbers can provide a theoretical basis and guidance for improving aquaculture. A metabolomics approach to characterize chang...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - December 29, 2018 Category: Genetics & Stem Cells Source Type: research

Comparative transcriptome analysis identifies genes associated with papilla development in the sea cucumber Apostichopus japonicus
Publication date: Available online 28 December 2018Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Yaoyao Zhan, Kai Lin, Chen Ge, Jian Che, Yingying Li, Dongyao Cui, Qiantong Pei, Lin Liu, Jian Song, Weijie Zhang, Yaqing ChangAbstractTo explore the molecular mechanisms underlying the initial differentiation and formation of papillae in sea cucumbers, the transcriptomes of Apostichopus japonicus pentactulae (without papillae) were compared to those of A. japonicus juveniles (with papillae). From the RNA of the three pentactula libraries and the three juvenile libraries, we obtained ...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - December 29, 2018 Category: Genetics & Stem Cells Source Type: research

Liver transcriptome analysis and de novo annotation of the orange-spotted groupers (Epinephelus coioides) under cold stress
Publication date: Available online 27 December 2018Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Zhenzhu Sun, Xiaohong Tan, Minglei Xu, Qingying Liu, Huaqun Ye, Cuiyun Zou, Chaoxia YeAbstractCold stress has caused great economic loss in fish culture worldwide. Orange-spotted grouper (Epinephelus coioides) is one of the most serious lost aquatic animals in 2016 cold fronts in South China. However, the molecular mechanism of grouper's cold resistance has remained largely unknown. In the present study, HiSeq™2000 (Illumina) was used to analyze the transcriptomic profiles of the li...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - December 27, 2018 Category: Genetics & Stem Cells Source Type: research

The developmental transcriptome of Trichopria drosophilae (Hymenoptera: Diapriidae) and insights into cuticular protein genes
This study provides a valuable transcriptomic resource for a comprehensive understanding of the development and physiology of T. drosophilae, and will help to improve their parasitism efficiency for biological control purposes.Graphical abstract (Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics)
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - December 26, 2018 Category: Genetics & Stem Cells Source Type: research

Brain and intestine transcriptome analyses and identification of genes involved in feed conversion efficiency of Yellow River carp (Cyprinus carpio haematopterus)
This study provides insights into the genetic mechanisms underlying feed efficiency in Yellow River carp and supplies valuable FCE-related candidate gene resources for potential molecular breeding studies.Graphical abstract (Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics)
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - December 20, 2018 Category: Genetics & Stem Cells Source Type: research

Antennal transcriptome analysis and expression profiles of odorant binding proteins in Clostera restitura
Publication date: Available online 11 December 2018Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Tianzi Gu, Kairu Huang, Shuo Tian, Yuhang Sun, Hui Li, Cong Chen, Dejun HaoAbstractClostera restitura Walker (Lepidoptera: Notodontidae) is one of the most destructive defoliators of poplars in China. We constructed an antennal transcriptome using Illumina Hiseq 2500™ sequencing and characterized the expression profiles of odorant binding proteins for better understanding of the olfactory receptive system and the role of putative olfactory proteins in C. restitura. A total of 165 tr...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - December 12, 2018 Category: Genetics & Stem Cells Source Type: research

iTRAQ-based proteome profiling of hyposaline responses in zygotes of the Pacific oyster Crassostrea gigas
In this study, isobaric tags for relative and absolute quantitation (iTRAQ) based proteomic profiling was pursued to investigate the responses of zygotes of the Pacific oyster Crassostrea gigas to low salinity. A total of 2235 proteins were identified and 87 proteins were considered differentially expressed, of which 14 were up-regulated and 69 were down-regulated. Numerous functional proteins including ADP ribosylation factor 2, DNA repair protein Rad50, splicing factor 3B, tubulin-specific Chaperone D were significantly changed in abundance, and were involved in various biology processes including energy generation, vesi...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - December 11, 2018 Category: Genetics & Stem Cells Source Type: research

Identification of the full 26 cytochrome P450 (CYP) genes and analysis of their expression in response to benzo[α]pyrene in the marine rotifer Brachionus rotundiformis
Publication date: Available online 4 December 2018Source: Comparative Biochemistry and Physiology Part D: Genomics and ProteomicsAuthor(s): Jeonghoon Han, Jun Chul Park, Atsushi Hagiwara, Heum Gi Park, Jae-Seong LeeAbstractCytochrome P450s (CYPs) are a large gene superfamily that are found in all living organisms. CYPs have a key role in detoxification of xenobiotics and endogenous chemicals. Although aquatic invertebrate CYPs and their detoxification mechanisms have been reported, little is known about interspecific comparison of CYPs and their detoxification mechanism in the rotifer Brachionus spp. The aim of this study ...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - December 5, 2018 Category: Genetics & Stem Cells Source Type: research

Proteomic analysis of the crustacean molting gland (Y-organ) over the course of the molt cycle
In this study, changes in protein abundance in the YO were characterized over the course of a molt cycle induced by multiple leg autotomy in the blackback land crab, Gecarcinus lateralis. In all, 457 distinct protein spots were detected using two-dimensional gel electrophoresis, of which 230 (50%) changed significantly in abundance over the course of the molt cycle. Protein abundance differed most notably between intermolt and the three premolt stages, indicative of a biological ‘on-off’ switch. Changes in hemolymph proteins were correlated with stage-specific processes of sclerotization and melanization that facilitat...
Source: Comparative Biochemistry and Physiology Part D: Genomics and Proteomics - December 3, 2018 Category: Genetics & Stem Cells Source Type: research