Xiao W.,CAS Wuhan Institute of Hydrobiology
Science China Life Sciences | Year: 2015
The hypoxia signaling pathway is an evolutionarily conserved cellular signaling pathway present in animals ranging from Caenorhabditis elegans to mammals. The pathway is crucial for oxygen homeostasis maintenance. Hypoxia-inducible factors (HIF-1α and HIF-2α) are master regulators in the hypoxia signaling pathway. Oxygen concentrations vary a lot in the aquatic environment. To deal with this, fishes have adapted and developed varying strategies for living in hypoxic conditions. Investigations into the strategies and mechanisms of hypoxia adaptation in fishes will allow us to understand fish speciation and breed hypoxia-tolerant fish species/strains. This review summarizes the process of the hypoxia signaling pathway and its regulation, as well as the mechanism of hypoxia adaptation in fishes. © 2015, The Author(s).
Jia Y.T.,CAS Wuhan Institute of Hydrobiology |
Chen Y.F.,CAS Wuhan Institute of Hydrobiology
Ecological Indicators | Year: 2013
Large river systems are some of the most important aquatic resource for human beings. Unfortunately, ecological integrity of large rivers has been altered severely by human activities. To monitor and manage these ecosystems, a large number of fish-based indexes, especially at community-level have been developed in the past decades. However, community-level methods have presented unique challenges in large river assessment. Comparatively, the population-level method could not only avoid the challenges, but also show many other advantages. Therefore, the aim of this paper is to develop and validate a population-based method applicable for large river. The present study was carried out at the Dongjiang River, with Xenocypris davidi and Hemibarbus labeo being selected as the sentinel indicators. In developing our method we sought population metrics, including growth, survival and reproduction related, to reflect ecological characteristics. Candidate biological metrics were screened for stability, responsiveness and redundancy. The metrics of standard length, average age and fecundity were finally selected for X. davidi, and standard length, weight, average age, and gonadosomatic index for H. labeo. Through the relationship between biological traits and catchments human disturbance information, Xunwu and Anyuan were ultimately chosen as the reference sites for X. davidi and H. labeo, respectively. The star plot areas, representing the degree of similarity with the reference conditions, showed a large variation among different sampling sites, ranging from 0.15 to 0.94 for X. davidi and 0.13 to 1.91 for H. labeo. It was indicated that all sampling sites except for XW could be assigned to the "impaired". The publicly available census data were used as independent data set to validate our method. The high agreement of both methods suggested that our method could provide an accurate measure for river ecosystem condition. We believe our methodology would be helpful for water resource management of large river. The methodology established here may also serve as a reference of how to develop a population-based index for similar assessments in other large river systems. © 2012 Elsevier Ltd. All rights reserved.
Guo Y.,CAS Wuhan Institute of Hydrobiology |
Zhou B.,CAS Wuhan Institute of Hydrobiology
Aquatic Toxicology | Year: 2013
The present study aimed to evaluate the disruption caused to the thyroid endocrine system by pentachlorophenol (PCP) using in vitro and in vivo assays. In the in vitro assay, rat pituitary GH3 cells were exposed to 0, 0.1, 0.3, and 1.0. μM PCP. PCP exposure significantly downregulated basal and triiodothyronine (T3)-induced Dio 1 transcription, indicating the antagonistic activity of PCP in vitro. In the in vivo assay, zebrafish embryos were exposed to 0, 1, 3, and 10. μg/L of PCP until 14 days post-fertilization. PCP exposure resulted in decreased thyroxine (T4) levels, but elevated contents of whole-body T3. PCP exposure significantly upregulated the mRNA expression of genes along hypothalamic-pituitary-thyroid (HPT) axis, including those encoding thyroid-stimulating hormone, sodium/iodide symporter, thyroglobulin, Dio 1 and Dio 2, alpha and beta thyroid hormone receptor, and uridinediphosphate-glucuronosyl-transferase. PCP exposure did not influence the transcription of the transthyretin (TTR) gene. The results indicate that PCP potentially disrupts the thyroid endocrine system both in vitro and in vivo. © 2013.
Wang C.M.,CAS Wuhan Institute of Hydrobiology
Dong wu xue yan jiu = Zoological research / "Dong wu xue yan jiu" bian ji wei yuan hui bian ji | Year: 2011
Historical records and data from yield surveys conducted in 2009 and 2010 were used to investigate macroinvertebrate community succession trends in Dianchi Lake. Species richness has declined from 57 in the 1980s to 32 in 2010, representing a species loss of 44%. Among the major benthic groups, the highest rate of loss was recorded for mollusks (75%) and aquatic insects (39%). Surveys in 2009 and 2010 across the lake revealed that the total density was 1776 ind/m2, comprising oligochaetes (1706 ind/m2) and chironomids (68 ind/m2). Over a nearly twenty-year span (1992-2010), the density and biomass of oligochaetes first increased sharply (1992-2002) and then declined gradually (2002-2010). Further, chironomids have decreased gradually while the proportion of abundant species has increased. Limnodrilus hoffmeisteri became the sole dominant species with an average relative abundance of 74.1%. Cosmopolitan species, such as Einfeldia sp., disappeared across the lake; instead, tolerant species such as Chironomus plumosus, Ch. attenuatus and Tanypus chinensis became the common. Mollusk community structure has become simpler and many native species have gone extinct. Species of concern include Margarya melanioides, M. mondi, M. mansugi and Cipangopaludina dianchiensis, all rated as critically endangered by the IUCN. We found that the Shannon-Wiener index declined in Dianchi Lake, particularly in Caohai Lake, from 2.70 in the 1950s to 0.30 in 2009 and 2010. Species richness and biodiversity was significantly negative correlated with total phosphorus and total nitrogen. Factors responsible for the benthic community retrogression described here include habitat destruction, lowering of water quality, outbreaks of blue-green algae, extinction of submerged plants and lack of germplasm resources.
Fu B.,CAS Wuhan Institute of Hydrobiology |
Fu B.,University of Chinese Academy of Sciences |
He S.,CAS Wuhan Institute of Hydrobiology
DNA Research | Year: 2012
The silver carp (Hypophthalmichthys molitrix) is among the most intensively pond-cultured fish species and is used in the wild to counteract water bloom in China. However, little genomic information is available for this species, especially regarding its ability to grow rapidly in water, even water contaminated with high concentrations of poisonous microcystin. In this study, we performed de novo transcriptome assembly and analysis of the 17.10 million short-read sequences produced by the Illumina paired-end sequencing technology. Using an improved multiple k-mer contig assembly method coupled with further scaffolding, 85 759 sequences were obtained. There were 23 044 sequences annotated with 3423 gene ontology terms for 104 196 term occurrences and the three corresponding organizing principles. A total of 38 200 assembled sequences were involved in 218 predicted Kyoto Encyclopedia of Genes and Genomes metabolic pathways. We also recovered 41 of 44 genes involved in the biosynthesis of glutathione. Of these, five genes were identified as experienced positive selection between silver carp and zebrafish, as determined by the likelihood ratio test. This report is the first annotated review of the silver carp transcriptome. These data will be of interest to researchers investigating the evolution and biological processes of the silver carp. This work also provides an archive for future studies of recent speciation and evolution of Cyprinidae fishes and can be used in comparative studies of other fishes. © The Author 2012. Published by Oxford University Press on behalf of Kazusa DNA Research Institute.
Diaz-Castillo C.,University of California at Irvine |
Xia X.-Q.,CAS Wuhan Institute of Hydrobiology |
Ranz J.M.,University of California at Irvine
PLoS Genetics | Year: 2012
Why gene order is conserved over long evolutionary timespans remains elusive. A common interpretation is that gene order conservation might reflect the existence of functional constraints that are important for organismal performance. Alteration of the integrity of genomic regions, and therefore of those constraints, would result in detrimental effects. This notion seems especially plausible in those genomes that can easily accommodate gene reshuffling via chromosomal inversions since genomic regions free of constraints are likely to have been disrupted in one or more lineages. Nevertheless, no empirical test has been performed to this notion. Here, we disrupt one of the largest conserved genomic regions of the Drosophila genome by chromosome engineering and examine the phenotypic consequences derived from such disruption. The targeted region exhibits multiple patterns of functional enrichment suggestive of the presence of constraints. The carriers of the disrupted collinear block show no defects in their viability, fertility, and parameters of general homeostasis, although their odorant perception is altered. This change in odorant perception does not correlate with modifications of the level of expression and sex bias of the genes within the genomic region disrupted. Our results indicate that even in highly rearranged genomes, like those of Diptera, unusually high levels of gene order conservation cannot be systematically attributed to functional constraints, which raises the possibility that other mechanisms can be in place and therefore the underpinnings of the maintenance of gene organization might be more diverse than previously thought. © 2012 Díaz-Castillo et al.
Zhang Y.-B.,CAS Wuhan Institute of Hydrobiology |
Gui J.-F.,CAS Wuhan Institute of Hydrobiology
Developmental and Comparative Immunology | Year: 2012
Interferon (IFN) response is the first line of host defense against virus infection. The recent years have witnessed tremendous progress in understanding of fish IFN antiviral response. Varied number of IFN genes has been identified in different fish species but obviously, they do not show a one-to-one orthologous relationship with mammalian IFN homologs. These genes are divided into two groups with different abilities to induce downstream gene expression through binding to different receptor complexes. Consistently, some fish IFN-stimulated genes such as Mx and PKR have been confirmed for their antiviral effects. In this review, we focus on how fish cells respond to IFNs and how fish IFNs are triggered through TLR pathway and RLR pathway. We highlight the roles of IRF3 and IRF7 in activation of fish IFN response. In addition, the unique mechanisms underlying IRF3/7-dependent fish IFN response and auto-regulation of fish IFN gene expression are discussed. © 2012 Elsevier Ltd.
Zhang W.,New Jersey Institute of Technology |
Zhang X.,CAS Wuhan Institute of Hydrobiology
Water Research | Year: 2015
Adsorption on colloidal particles is one of the environmental processes affecting fate, transport, viability or reproducibility of viruses. This work studied colloidal interactions (adsorption kinetics and isotherms) between different oxide nanoparticles (NPs) (i.e., TiO2, NiO, ZnO, SiO2, and Al2O3) and bacteriophage, MS2. The results shows that that all oxide NPs exhibited strong adsorption capacity for MS2, except SiO2 NPs, which is supported by the extended Derjaguin and Landau, Verwey and Overbeek (EDLVO) theory. Moreover, the implication of such colloidal interactions on water disinfection is manifested by the observations that the presence of TiO2 and ZnO NPs could enhance MS2 inactivation under solar irradiation, whereas NiO and SiO2 decreased MS2 inactivation. By contrast, all of these oxide NPs were found to mitigate chlorine disinfection against MS2 to different extent, and the shielding effect was probably caused by reduced free chlorine and free MS2 in the solution due to sorption onto NPs. Clearly, there is a pressing need to further understand colloidal interactions between engineered NPs and viruses in water to better improve the current water treatment processes and to develop novel nanomaterials for water disinfection. © 2014 Elsevier Ltd.
Feng X.,CAS Wuhan Institute of Hydrobiology |
Liu X.,CAS Wuhan Institute of Hydrobiology |
Zhang W.,CAS Wuhan Institute of Hydrobiology |
Xiao W.,CAS Wuhan Institute of Hydrobiology
EMBO Journal | Year: 2011
Hypoxia stabilizes the tumour suppressor p53, allowing it to function primarily as a transrepressor; however, the function of p53 during hypoxia remains unclear. In this study, we showed that p53 suppressed BNIP3 expression by directly binding to the p53-response element motif and recruiting corepressor mSin3a to the BNIP3 promoter. The DNA-binding site of p53 must remain intact for the protein to suppress the BNIP3 promoter. In addition, taking advantage of zebrafish as an in vivo model, we confirmed that zebrafish nip3a, a homologous gene of mammalian BNIP3, was indeed induced by hypoxia and p53 mutation/knockdown enhanced nip3a expression under hypoxia resulted in cell death enhancement in p53 mutant embryos. Furthermore, p53 protected against hypoxia-induced cell death mediated by p53 suppression of BNIP3 as illustrated by p53 knockdown/loss assays in both human cell lines and zebrafish model, which is in contrast to the traditional pro-apoptotic role of p53. Our results suggest a novel function of p53 in hypoxia-induced cell death, leading to the development of new treatments for ischaemic heart disease and cerebral stoke. © 2011 European Molecular Biology Organization.
Sun Y.-H.,CAS Wuhan Institute of Hydrobiology |
Zhu Z.-Y.,CAS Wuhan Institute of Hydrobiology
Journal of Physiology | Year: 2014
It is widely accepted that the crosstalk between naive nucleus and maternal factors deposited in the egg cytoplasm before zygotic genome activation is crucial for early development. This crosstalk may also exert some influence on later development. It is interesting to clarify the relative roles of the zygotic genome and the cytoplasmic factors in development. Cross-species nuclear transfer (NT) between two distantly related species provides a unique system to study the relative role and crosstalk between egg cytoplasm and zygotic nucleus in development. In this review, we will summarize the recent progress of cross-species NT, with emphasis on the cross-species NT in fish and the influence of cytoplasmic factors on development. Finally, we conclude that the developmental process and its evolution should be interpreted in a systemic way, rather than in a way that solely focuses on the role of the nuclear genome. © 2014 The Physiological Society.