21,890 results match your criteria transcripts detected


Effect of long-term intergenerational exposure to ocean acidification on ompa and ompb transcripts expression in European seabass (Dicentrarchus labrax).

Mar Environ Res 2021 Jul 27;170:105438. Epub 2021 Jul 27.

Department of Integrative Ecophysiology, Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research, 27570 Bremerhaven, Germany.

Since sensory system allows organisms to perceive and interact with their external environment, any disruption in their functioning may have detrimental consequences on their survival. Ocean acidification has been shown to potentially impair olfactory system in fish and it is therefore essential to develop biological tools contributing to better characterize such effects. The olfactory marker protein (omp) gene is involved in the maturation and the activity of olfactory sensory neurons in vertebrates. Read More

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Profiling Analysis of Circular RNA and mRNA in Human Temporal Lobe Epilepsy with Hippocampal Sclerosis ILAE Type 1.

Cell Mol Neurobiol 2021 Aug 2. Epub 2021 Aug 2.

Department of Neurosurgery, The First Affiliated Hospital, Harbin Medical University, Harbin, 150001, Heilongjiang, China.

Hippocampal sclerosis (HS) is the most common surgical pathology associated with temporal lobe epilepsy (TLE). However, the cause of TLE with or without HS remains unknown. Our current study aimed to illustrate the essential molecular mechanism that is potentially involved in the pathogenesis of TLE-HS and to shed light on the transcriptional changes associated with hippocampal sclerosis. Read More

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Immune delineation of laryngeal papilloma reveals enhanced neutrophil associated gene profile.

Eur J Immunol 2021 Aug 1. Epub 2021 Aug 1.

Department of Medical Microbiology, Lund University, Lund, Sweden.

Laryngeal papilloma (LP) is a rare benign disease, caused by recurrent multisite papillomas that are referred to as recurrent respiratory papillomatosis (RRP). RRP is caused primarily by two types of human papillomavirus (HPV): HPV6 and HPV11. The immune dysregulation within the microenvironment of the lesions has been shown to likely play a role in the development of RRP. Read More

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Hepatitis E Virus Persistence and/or Replication in the Peripheral Blood Mononuclear Cells of Acute HEV-Infected Patients.

Front Microbiol 2021 16;12:696680. Epub 2021 Jul 16.

Department of Medical Microbiology and Immunology, Faculty of Medicine, Assiut University, Assiut, Egypt.

Background: Hepatitis E virus (HEV) causes about 14 million infections with 300,000 deaths and 5,200 stillbirths worldwide annually. Extrahepatic manifestations are reported with HEV infections, such as renal, neurological, and hematological disorders. Recently, we reported that stool-derived HEV-1 replicates efficiently in human monocytes and macrophages . Read More

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Deletion of Gremlin-2 alters estrous cyclicity and disrupts female fertility in mice.

Biol Reprod 2021 Aug 2. Epub 2021 Aug 2.

Department of Pathology & Immunology, Baylor College of Medicine, Houston, TX 77030.

Members of the differential screening-selected gene aberrative in neuroblastoma (DAN) protein family are developmentally conserved extracellular binding proteins that antagonize bone morphogenetic protein (BMP) signaling. This protein family includes the Gremlin proteins, GREM1 and GREM2, which have key functions during embryogenesis and adult physiology. While BMPs play essential roles in ovarian follicle development, the role of the DAN family in female reproductive physiology is less understood. Read More

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Experimental long-term diabetes mellitus alters the transcriptome and biomechanical properties of the rat urinary bladder.

Sci Rep 2021 Jul 30;11(1):15529. Epub 2021 Jul 30.

School of Medical Sciences, Faculty of Biology, Medicine and Health, University of Manchester, Oxford Road, Manchester, M13 9PT, UK.

Diabetes mellitus (DM) is the leading cause of chronic kidney disease and diabetic nephropathy is widely studied. In contrast, the pathobiology of diabetic urinary bladder disease is less understood despite dysfunctional voiding being common in DM. We hypothesised that diabetic cystopathy has a characteristic molecular signature. Read More

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Mature B cell acute lymphoblastic leukaemia with KMT2A-MLLT3 transcripts in children: three case reports and literature reviews.

Orphanet J Rare Dis 2021 07 30;16(1):331. Epub 2021 Jul 30.

Division of Haematology and Oncology, Children's Hospital of Chongqing Medical University, No. 136, Zhongshan 2nd Road, Yuzhong District, Chongqing, 400014, People's Republic of China.

Background: Mature B cell acute lymphoblastic leukaemia (BAL) is characterised by French-American-British (FAB)-L3 morphology and the presence of surface immunoglobulin (sIgM) light chain restriction. BAL is also considered as the leukaemic phase of Burkitt lymphoma (BL), in which t (8; 14) (q24; q32) or its variants are related to the myelocytomatosis oncogene (MYC) rearrangement (MYCr) is usually present. However, BAL with lysine methyltransferase 2A (KMT2A, previously called Mixed lineage leukaemia, MLL) gene rearrangement (KMT2Ar, previously called MLLr) is rare. Read More

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Expression of the developmental important candidate genes in oocytes, embryos, embryonic stem cells, cumulus cells, and fibroblast cells of buffalo (Bubalus bubalis).

Gene Expr Patterns 2021 Jul 27:119200. Epub 2021 Jul 27.

Animal Biotechnology Centre, ICAR-National Dairy Research Institute, Karnal, 132001, Haryana, India. Electronic address:

The present study was undertaken to study the expression of the developmental important gene transcripts in immature oocytes, mature oocytes, different stages of IVF produced embryos, embryonic stem (ES), cumulus (BCC), fetal fibroblast (BFF), newborn fibroblast (NBF) and adult fibroblast (BAF) cells of buffalo by semi-quantitative RT-PCR. The expression of GLUT1, HSP70.1, POL A Polymerase, GDF9, BMP15, and SURVIVIN transcripts was found in immature oocytes, mature oocytes, 2-cell, 4-cell, 8-16 cell, morula, and the blastocyst. Read More

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CRISPR Technique Incorporated with Single-Cell RNA Sequencing for Studying Hepatitis B Infection.

Anal Chem 2021 Jul 30. Epub 2021 Jul 30.

Li Ka Shing Institute of Virology, Department of Medical Microbiology and Immunology, University of Alberta, 6010 Katz Centre for Health Research, Edmonton, Alberta, Canada T6G 2E1.

Single-cell RNA sequencing (scRNA-seq) provides rich transcriptomic information for studying molecular events and cell heterogeneity at the single-cell level. However, it is challenging to obtain sequence information from rare or low-abundance genes in the presence of other highly abundant genes. We report here a CRISPR-Cas9 technique for the depletion of high-abundance transcripts, resulting in preferential enrichment of rare transcripts. Read More

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Comparative transcriptome analysis reveals regulatory network and regulators associated with proanthocyanidin accumulation in persimmon.

BMC Plant Biol 2021 Jul 29;21(1):356. Epub 2021 Jul 29.

Key Laboratory of Horticultural Plant Biology, Huazhong Agricultural University, Wuhan, 430070, Hubei, China.

Background: Proanthocyanidins (PAs) are important plant secondary metabolites that confer flavor, nutritional value, and resistance to pathogens. Persimmon is one of the PA richest crops. Mature fruits can be inedible because of the astringency caused by high PA levels and need to go through a de-astringency treatment before consumption. Read More

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LPXRFa and its receptor in yellowtail kingfish (Seriola lalandi): molecular cloning, ontogenetic expression profiles, and stimulatory effects on growth hormone and gonadotropin gene expression.

Gen Comp Endocrinol 2021 Jul 26:113872. Epub 2021 Jul 26.

Key Laboratory of Sustainable Development of Marine Fisheries, Ministry of Agriculture and Rural Affairs, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, China; Laboratory for Marine Fisheries and Food Production Processes, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, China. Electronic address:

Despite its functional significance in mammals and birds, the biological role of gonadotropin-inhibitory hormone (GnIH) in reproduction is still far from being fully understood in teleosts. In the current study, we have identified LPXRFa, the piscine ortholog of GnIH, and its cognate receptor (LPXRFa-R) in yellowtail kingfish (YTK), which is considered as a promising species for aquaculture industry worldwide. The YTK cDNA sequence of lpxrfa was 534 base pair (bp) in length and encoded a 178-amino acids (aa) preprohormone. Read More

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TLR2 deficiency promotes IgE and inhibits IgG1 class-switching following ovalbumin sensitization.

Ital J Pediatr 2021 Jul 27;47(1):162. Epub 2021 Jul 27.

Children's Hospital of Soochow University, Suzhou, 215003, People's Republic of China.

Background: To explore the roles of Toll-like receptor (TLR)2 in Th2 cytokine production and immunoglobulin (Ig) class switching following ovalbumin (OVA) sensitization.

Methods: TLR2 and wild-type C57BL/6 mice were sensitized by intraperitoneal injection with OVA. Lung pathology was assessed by hematoxylin and eosin staining. Read More

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Characterization and functional study of a chimera galectin from yellow drum Nibea albiflora.

Int J Biol Macromol 2021 Jul 24;187:361-372. Epub 2021 Jul 24.

Key Laboratory of Healthy Mariculture for the East China Sea, Ministry of Agriculture, Fisheries College, Jimei University, Xiamen 361021, China. Electronic address:

Galectins are protein that participates in a variety of immune responses in the process of pathogenic infections. In the present study, a chimera galectin gene was screened from the transcriptome database of Nibea albiflora, which was named as YdGal-3. The results of qRT-PCR showed that the mRNA transcripts of YdGal-3 were ubiquitously distributed in all the detected tissues. Read More

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Molecular characterization of a catalase gene from the green peach aphid (Myzus persicae).

Arch Insect Biochem Physiol 2021 Jul 26:e21835. Epub 2021 Jul 26.

Anhui Provincial Key Laboratory of Integrated Pest Management on Crops, School of Plant Protection, Anhui Agricultural University, Hefei, China.

The green peach aphid, Myzus persicae (Sulzer), is a serious agricultural pest with a worldwide distribution. Catalase (CAT), which is encoded by the catalase (Cat) gene, is an extremely important antioxidant enzyme that plays a pivotal role in protecting cells against the toxic effects of hydrogen peroxide. The Cat gene has not been characterized in M. Read More

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Long Non-coding RNA ASNR Targeting miR-519e-5p Promotes Gastric Cancer Development by Regulating FGFR2.

Front Cell Dev Biol 2021 9;9:679176. Epub 2021 Jul 9.

The Third Department of Surgery, The Fourth Hospital of Hebei Medical University, Shijiazhuang, China.

Gastric cancer (GC), as a common gastrointestinal tumor, is an important cause of death from cancer all around the world. Long non-coding RNAs (lncRNAs), a novel class of transcripts, have attracted great attention of researchers. However, the mechanisms of the clinical significance of most lncRNAs in human cancer are mainly undocumented. Read More

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Novel compound heterozygous TTN variants as a cause of severe neonatal congenital contracture syndrome without cardiac involvement diagnosed with rapid trio exome sequencing.

Neuromuscul Disord 2021 May 24. Epub 2021 May 24.

Clinical Genetics Department, Birmingham Women's and Children's NHS Foundation Trust, Birmingham, UK.

This report focuses on a case of severe congenital myopathy with arthrogryposis without cardiac involvement due to compound heterozygous variants in the TTN gene. The proband presented with severe axial hypotonia, arthrogryposis and severe respiratory insufficiency with ventilator dependence. Electromyogram was abnormal with absent motor responses but preserved sensory nerve responses. Read More

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Transcriptome Analysis and miRNA Target Profiling at Various Stages of Root-Knot Nematode Development for Identification of Potential Regulatory Networks.

Int J Mol Sci 2021 Jul 12;22(14). Epub 2021 Jul 12.

National Agrobiodiversity Center, National Institute of Agricultural Sciences, Rural Development Administration, Jeonju 54874, Korea.

Root-knot nematodes (RKNs) are a group of plant-parasitic nematodes that cause damage to various plant species and extensive economical losses. In this study, we performed integrated analysis of miRNA and mRNA expression data to explore the regulation of miRNA and mRNA in RKNs. In particular, we aimed to elucidate the mRNA targets of miRNAs and variations of the RKN transcriptome during five stages of its life cycle. Read More

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Linear Peptides-A Combinatorial Innovation in the Venom of Some Modern Spiders.

Front Mol Biosci 2021 6;8:705141. Epub 2021 Jul 6.

Institute of Ecology and Evolution, University of Bern, Bern, Switzerland.

In the venom of spiders, linear peptides (LPs), also called cytolytical or antimicrobial peptides, represent a largely neglected group of mostly membrane active substances that contribute in some spider species considerably to the killing power of spider venom. By next-generation sequencing venom gland transcriptome analysis, we investigated 48 spider species from 23 spider families and detected LPs in 20 species, belonging to five spider families (Ctenidae, Lycosidae, Oxyopidae, Pisauridae, and Zodariidae). The structural diversity is extraordinary high in some species: the lynx spider contains 62 and the lycosid 60 different LPs. Read More

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Genome-Wide DNA (hydroxy)methylation reveals the individual epigenetic landscape importance on osteogenic phenotype acquisition in periodontal ligament cells.

J Periodontol 2021 Jul 22. Epub 2021 Jul 22.

Department of Dentistry, University of Taubaté, Taubaté, Brazil.

Background: Mesenchymal cells' biology has been an important investigative tool to maximize bone regeneration through tissue engineering. Here we used mesenchymal cells from periodontal ligament (PDLCs) with high (h-) and low (l-) osteogenic potential, isolated from different donors, to investigate the impact of the individual epigenetic and transcriptional profiles on the osteogenic potential.

Materials And Methods: Genome-wide and gene-specific DNA (hydroxy)methylation, mRNA expression and immunofluorescence analysis were carried out in h- and l-PDLCs at DMEM (non-induced to osteogenesis) and OM (induced - 3 and 10 days of osteogenic differentiation) groups in vitro. Read More

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Alternative splicing regulates the α-glucosidase synthesis in Aspergillus neoniger NCIM 1400.

Fungal Biol 2021 Aug 14;125(8):658-665. Epub 2021 Apr 14.

Microbiology & Fermentation Technology Department, CSIR-Central Food Technological Research Institute, Mysuru, Karnataka, 570020, India; AcSIR-Academy of Scientific & Innovative Research, Ghaziabad, UP, 201002, India. Electronic address:

Aspergillus neoniger NCIM 1400 whose cell-free fraction was earlier established for transglycosylation activity conferred by α-glucosidase gene (agdA), was subjected to sequence analysis. Preliminary results revealed certain dynamics in the intron splicing mechanism, and to ascertain these molecular events, a detailed study was carried. The electrophoresis results from the cDNA portion (B-fragment) of agdA showed multiple bands, indicating the amplification of one or more fragments. Read More

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Transcriptomes of an Array of Chicken Ovary, Intestinal, and Immune Cells and Tissues.

Front Genet 2021 30;12:664424. Epub 2021 Jun 30.

College of Veterinary Medicine, Western University of Health Sciences, Pomona, CA, United States.

While the chicken () is the most consumed agricultural animal worldwide, the chicken transcriptome remains understudied. We have characterized the transcriptome of 10 cell and tissue types from the chicken using RNA-seq, spanning intestinal tissues (ileum, jejunum, proximal cecum), immune cells (B cells, bursa, macrophages, monocytes, spleen T cells, thymus), and reproductive tissue (ovary). We detected 17,872 genes and 24,812 transcripts across all cell and tissue types, representing 73% and 63% of the current gene annotation, respectively. Read More

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Impact of the Breakpoint Region on the Leukemogenic Potential and the TKI Responsiveness of Atypical Transcripts.

Front Pharmacol 2021 30;12:669469. Epub 2021 Jun 30.

Department of Clinical and Experimental Medicine, University of Catania, Catania, Italy.

Chronic Myeloid Leukemia (CML) is a hematological disorder characterized by the clonal expansion of a hematopoietic stem cell carrying the Philadelphia chromosome that juxtaposes the and genes. The ensuing chimeric oncogene is characterized by a breakpoint region that generally involves exons 1, 13 or 14 in and exon 2 in . Additional breakpoint regions, generating uncommon fusion transcripts, have been detected in various CML patients. Read More

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Molecular characteristics and clinical outcomes of complex ALK rearrangements identified by next-generation sequencing in non-small cell lung cancers.

J Transl Med 2021 Jul 16;19(1):308. Epub 2021 Jul 16.

Department of Pathology, The First Affiliated Hospital of Zhengzhou University, Zhengzhou University, Jian She Dong Road 1, Zhengzhou, 450052, Henan, China.

Background: Complex kinase rearrangement, a mutational process involving one or two chromosomes with clustered rearrangement breakpoints, interferes with the accurate detection of kinase fusions by DNA-based next-generation sequencing (NGS). We investigated the characteristics of complex ALK rearrangements in non-small cell lung cancers using multiple molecular tests.

Methods: Samples of non-small cell lung cancer patients were analyzed by targeted-capture DNA-based NGS with probes tilling the selected intronic regions of fusion partner genes, RNA-based NGS, RT-PCR, immunohistochemistry (IHC) and fluorescence in situ hybridization (FISH). Read More

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Identification of Microbiological Activities in Wet Flue Gas Desulfurization Systems.

Front Microbiol 2021 28;12:675628. Epub 2021 Jun 28.

Department of Biology, The University of Akron, Akron, OH, United States.

Thermoelectric power generation from coal requires large amounts of water, much of which is used for wet flue gas desulfurization (wFGD) systems that minimize sulfur emissions, and consequently, acid rain. The microbial communities in wFGDs and throughout thermoelectric power plants can influence system performance, waste processing, and the long term stewardship of residual wastes. Any microorganisms that survive in wFGD slurries must tolerate high total dissolved solids concentrations (TDS) and temperatures (50-60°C), but the inocula for wFGDs are typically from fresh surface waters (e. Read More

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A novel class III endogenous retrovirus with a class I envelope gene in African frogs with an intact genome and developmentally regulated transcripts in Xenopus tropicalis.

Retrovirology 2021 Jul 14;18(1):20. Epub 2021 Jul 14.

Laboratory of Molecular Microbiology, National Institute of Allergy and Infectious Diseases, Bethesda, MD, 20892, USA.

Background: Retroviruses exist as exogenous infectious agents and as endogenous retroviruses (ERVs) integrated into host chromosomes. Such endogenous retroviruses (ERVs) are grouped into three classes roughly corresponding to the seven genera of infectious retroviruses: class I (gamma-, epsilonretroviruses), class II (alpha-, beta-, delta-, lentiretroviruses) and class III (spumaretroviruses). Some ERVs have counterparts among the known infectious retroviruses, while others represent paleovirological relics of extinct or undiscovered retroviruses. Read More

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Modulating Thyroid Hormone Levels in Adult Mice: Impact on Behavior and Compensatory Brain Changes.

J Thyroid Res 2021 24;2021:9960188. Epub 2021 Jun 24.

Sanders Brown Center on Aging, University of Kentucky, Lexington, KY 40536, USA.

Thyroid hormone (TH) perturbation is a common medical problem. Because of substantial public health impact, prior researchers have studied hyper- and hypothyroidism in animal models. Although most prior research focused on and/or developmental effects, changes in circulating TH levels are commonly seen in elderly individuals: approximately 20% of persons older than 80 years have clinically impactful hypothyroidism and up to 5% have clinical hyperthyroidism, with women being more often affected than men. Read More

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At elevated temperatures, heat shock protein genes show altered ratios of different RNAs and expression of new RNAs, including several novel HSPB1 mRNAs encoding HSP27 protein isoforms.

Exp Ther Med 2021 Aug 24;22(2):900. Epub 2021 Jun 24.

Key Lab of Endemic and Ethnic Diseases of The Ministry of Education of China in Guizhou Medical University, Guiyang, Guizhou 550004, P.R. China.

Heat shock proteins (HSP) serve as chaperones to maintain the physiological conformation and function of numerous cellular proteins when the ambient temperature is increased. To determine how accurate the general assumption that HSP gene expression is increased in febrile situations is, the RNA levels of the HSF1 (heat shock transcription factor 1) gene and certain HSP genes were determined in three cell lines cultured at 37˚C or 39˚C for three days. At 39˚C, the expression of HSF1, HSPB1, HSP90AA1 and HSP70A1L genes demonstrated complex changes in the ratios of expression levels between different RNA variants of the same gene. Read More

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Identification and characterization of a novel Epstein-Barr Virus-encoded circular RNA from LMP-2 Gene.

Sci Rep 2021 Jul 13;11(1):14392. Epub 2021 Jul 13.

Institute of Biological Sciences, Faculty of Science, Universiti Malaya, 50603, Kuala Lumpur, Malaysia.

Epstein-Barr virus (EBV) has been recently found to generate novel circular RNAs (circRNAs) through backsplicing. However, comprehensive catalogs of EBV circRNAs in other cell lines and their functional characterization are still lacking. In this study, we have identified a list of putative EBV circRNAs in GM12878, an EBV-transformed lymphoblastoid cell line, with a significant majority encoded from the EBV latent genes. Read More

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FLAME: Long-read bioinformatics tool for comprehensive spliceome characterization.

RNA 2021 Jul 12. Epub 2021 Jul 12.

University of Gothenburg

Comprehensive characterization of differentially spliced RNA transcripts with nanopore sequencing is limited by bioinformatics tools that are reliant on existing annotations. We have developed FLAME, a bioinformatics pipeline for alternative splicing analysis of gene-specific or transcriptome-wide long-read sequencing data. FLAME is a Python-based tool aimed at providing comprehensible quantification of full-length splice variants, reliable de novo recognition of splice sites and exons, and representation of consecutive exon connectivity in the form of a weighted adjacency matrix. Read More

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DNA binding protein CgIkaros-like regulates the proliferation of agranulocytes and granulocytes in oyster (Crassostrea gigas).

Dev Comp Immunol 2021 Nov 10;124:104201. Epub 2021 Jul 10.

Liaoning Key Laboratory of Marine Animal Immunology, Dalian Ocean University, Dalian, 116023, China; Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai, 519000, China; Functional Laboratory of Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266235, China; Dalian Key Laboratory of Aquatic Animal Disease Prevention and Control, Dalian Ocean University, Dalian, 116023, China. Electronic address:

DNA-binding protein Ikaros is a major determinant of haematopoietic lineage, especially in the development, differentiation and proliferation of lymphocytes. In the present study, a Ikaros homologue (designed as CgIkaros-like) was identified and characterized as a vital determinant in the proliferation of haemocytes during haematopoiesis of Pacific oyster Crassostrea gigas. The complete coding sequence of CgIkaros-like was of 1329 bp encoding a predicted polypeptide of 442 amino acids with four ZnF regions, locating at the C-terminus and N-terminus respectively. Read More

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November 2021