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  • Oxford University Press (OUP)  (3)
  • 2020-2024  (3)
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  • Oxford University Press (OUP)  (3)
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  • 2020-2024  (3)
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  • 1
    Online Resource
    Online Resource
    Oxford University Press (OUP) ; 2021
    In:  G3 Genes|Genomes|Genetics Vol. 11, No. 9 ( 2021-09-06)
    In: G3 Genes|Genomes|Genetics, Oxford University Press (OUP), Vol. 11, No. 9 ( 2021-09-06)
    Abstract: The blue crab, Callinectes sapidus (Rathbun, 1896) is an economically, culturally, and ecologically important species found across the temperate and tropical North and South American Atlantic coast. A reference genome will enable research for this high-value species. Initial assembly combined 200× coverage Illumina paired-end reads, a 60× 8 kb mate-paired library, and 50× PacBio data using the MaSuRCA assembler resulting in a 985 Mb assembly with a scaffold N50 of 153 kb. Dovetail Chicago and HiC sequencing with the 3d DNA assembler and Juicebox assembly tools were then used for chromosome scaffolding. The 50 largest scaffolds span 810 Mb are 1.5–37 Mb long and have a repeat content of 36%. The 190 Mb unplaced sequence is in 3921 sequences over 10 kb with a repeat content of 68%. The final assembly N50 is 18.9 Mb for scaffolds and 9317 bases for contigs. Of arthropod BUSCO, ∼88% (888/1013) were complete and single copies. Using 309 million RNAseq read pairs from 12 different tissues and developmental stages, 25,249 protein-coding genes were predicted. Between C. sapidus and Portunus trituberculatus genomes, 41 of 50 large scaffolds had high nucleotide identity and protein-coding synteny, but 9 scaffolds in both assemblies were not clear matches. The protein-coding genes included 9423 one-to-one putative orthologs, of which 7165 were syntenic between the two crab species. Overall, the two crab genome assemblies show strong similarities at the nucleotide, protein, and chromosome level and verify the blue crab genome as an excellent reference for this important seafood species.
    Type of Medium: Online Resource
    ISSN: 2160-1836
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2021
    detail.hit.zdb_id: 2629978-1
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  • 2
    In: Journal of Crustacean Biology, Oxford University Press (OUP), Vol. 41, No. 3 ( 2021-09-01)
    Abstract: Fisheries management requires a thorough understanding of the processes involved in reproduction, including the ability to distinguish sexually mature individuals. The Jonah crab, Cancer borealisStimpson, 1859, occurs from Newfoundland to Florida, but the fishery is concentrated in New England. The crab contributes to a significant and growing male-driven fishery; however, little is known about its life history. We investigated the relationship between morphometrics and physiological maturity, and the size at which these life changes occur in the southern New England stock. The size at 50% sexual maturity (SM50) in male C. borealis was estimated morphometrically to be 105.9 mm carapace width (CW). This size is larger than the estimate of 98.3 mm CW for the species in the Mid-Atlantic Bight but lower than the estimate of 127.6 on the Scotian Shelf, consistent with a poleward gradient in size at maturity. The gonadosomatic index differs significantly between CW size groups, maturity status, and season whereas spermatophore size was not related to CW. Fisheries management should include multiple measures of sexual maturity and consider factors including geographical distribution when establishing and assessing guidelines for this economically important species.
    Type of Medium: Online Resource
    ISSN: 0278-0372 , 1937-240X
    RVK:
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2021
    detail.hit.zdb_id: 2173764-2
    SSG: 12
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  • 3
    In: Cardiovascular Research, Oxford University Press (OUP), Vol. 119, No. 5 ( 2023-05-22), p. 1265-1278
    Abstract: The nuclear factor-κB (NF-κB) signalling pathway plays a critical role in the pathogenesis of multiple vascular diseases. However, in endothelial cells (ECs), the molecular mechanisms responsible for the negative regulation of the NF-κB pathway are poorly understood. In this study, we investigated a novel role for protein tyrosine phosphatase type IVA1 (PTP4A1) in NF-κB signalling in ECs. Methods and results In human tissues, human umbilical artery ECs, and mouse models for loss of function and gain of function of PTP4A1, we conducted histological analysis, immunostaining, laser-captured microdissection assay, lentiviral infection, small interfering RNA transfection, quantitative real-time PCR and reverse transcription-PCR, as well as luciferase reporter gene and chromatin immunoprecipitation assays. Short hairpin RNA-mediated knockdown of PTP4A1 and overexpression of PTP4A1 in ECs indicated that PTP4A1 is critical for inhibiting the expression of cell adhesion molecules (CAMs). PTP4A1 increased the transcriptional activity of upstream stimulatory factor 1 (USF1) by dephosphorylating its S309 residue and subsequently inducing the transcription of tumour necrosis factor-alpha-induced protein 3 (TNFAIP3/A20) and the inhibition of NF-κB activity. Studies on Ptp4a1 knockout or transgenic mice demonstrated that PTP4A1 potently regulates the interleukin 1β-induced expression of CAMs in vivo. In addition, we verified that PTP4A1 deficiency in apolipoprotein E knockout mice exacerbated high-fat high-cholesterol diet-induced atherogenesis with upregulated expression of CAMs. Conclusion Our data indicate that PTP4A1 is a novel negative regulator of vascular inflammation by inducing USF1/A20 axis-mediated NF-κB inactivation. Therefore, the expression and/or activation of PTP4A1 in ECs might be useful for the treatment of vascular inflammatory diseases.
    Type of Medium: Online Resource
    ISSN: 0008-6363 , 1755-3245
    RVK:
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2023
    detail.hit.zdb_id: 1499917-1
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