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Author(s):  
Kevin D Ross ◽  
Jie Ren ◽  
Ruilin Zhang ◽  
Neil C Chi ◽  
Bruce A Hamilton

Abstract How and to what degree gene duplication events create regulatory innovation, redundancy, or neofunctionalization remain important questions in animal evolution and comparative genetics. Ankfn1 genes are single copy in most invertebrates, partially duplicated in jawed vertebrates, and only the derived copy retained in most mammals. Null mutations in the single mouse homolog have vestibular and neurological abnormalities. Null mutation of the single Drosophila homolog is typically lethal with severe sensorimotor deficits in rare survivors. The functions and potential redundancy of paralogs in species with two copies is not known. Here we define a vestibular role for Ankfn1 homologs in zebrafish based on simultaneous disruption of each locus. Zebrafish with both paralogs disrupted showed vestibular defects and early lethality from swim bladder inflation failure. One intact copy at either locus was sufficient to prevent major phenotypes. Our results show that vertebrate Ankfn1 genes are required for vestibular-related functions, with at least partial redundancy between ancestral and derived paralogs.


2021 ◽  
Author(s):  
Kevin D. Ross ◽  
Jie Ren ◽  
Ruilin Zhang ◽  
Neil C. Chi ◽  
Bruce A. Hamilton

How and to what degree gene duplication events create regulatory innovation, redundancy, or neofunctionalization remain important questions in animal evolution and comparative genetics. Ankfn1 genes are single copy in most invertebrates, partially duplicated in jawed vertebrates, and only the derived copy retained in most mammals. Null mutations in the single mouse homolog have vestibular and neurological abnormalities. Null mutation of the single Drosophila homolog is typically lethal with severe sensorimotor deficits in rare survivors. The functions and potential redundancy of paralogs in species with two copies is not known. Here we define a vestibular role for Ankfn1 homologs in zebrafish based on simultaneous disruption of each locus. Zebrafish with both paralogs disrupted showed vestibular defects and early lethality from swim bladder inflation failure. One intact copy at either locus was sufficient to prevent major phenotypes. Our results show that vertebrate Ankfn1 genes are required for vestibular-related functions, with at least partial redundancy between ancestral and derived paralogs.


Blood ◽  
2020 ◽  
Vol 136 (Supplement 1) ◽  
pp. 39-40
Author(s):  
Masahiro Ikeda ◽  
Muneyoshi Futami ◽  
Bidisha Chanda ◽  
Masayuki Kobayashi ◽  
Kiyoko Izawa ◽  
...  

Severe congenital neutropenia (SCN) is characterized by severe neutropenia and recurrent episodes of critical infections. X-linked neutropenia (XLN) is a very rare type of SCN caused by a gain-of-function mutation in the Wiscott-Aldrich syndrome gene (WAS), the product of which (WASp) is expressed only in blood cells, and especially to higher extent during neutrophil maturation. Only four types of WASp mutations in its GBD domain (L270P, S272P, I290T, and I294T) have been described so far, and we reported the first Asian case with WASp-I290T.These mutations are supposed to destroy the autoinhibiting conformation of WASp and aberrantly activates WASp. Two mouse models harboring WASp-L272P or I296T, mouse homologs of XLN WASp, have been developed, but neither could recapitulate neutropenia. Herein, we established a novel knock-in mouse carrying WASp-I292T, a mouse homolog of XLN WASp-I290T, and we combined investigations of its peripheral blood and bone marrow cells with analysis of primary samples and iPS cells derived from a WASp-I290T patient. A proband of XLN had 1.3 x 103/mL WBC with a differential count of 8% neutrophils, 5.3% monocytes, 2.3% eosinophils, 3% basophils, and 80.4% lymphocytes. BM revealed marked myeloid hypoplasia with a slight dysplastic change and maturation arrest at the myelocyte stage, and colony forming ability of BM CD34+cells in methylcellulose containing SCF, IL3, and G-CSF demonstrated profound defects in G- and GM-colonies. The patient-derived iPS cells were developed and were induced to differentiate into HSCs by a coculture over an OP9 monolayer, supplemented with optimal cytokine cocktails. Resulting frequency of CD45+CD34+cells was rather comparable to that from cord blood (CB)-derived iPS cells. However, XLN-iPS-derived CD45+CD34+cells produced 5-fold smaller number of myeloid colonies than CB-iPS-derived thosecells in the same methylcellulose culture. To further gain insight into the underlying abnormalities induced by WASp-I290T, we established a novel knock-in mouse model harboring WASp-I292T, which was obtained from CRISPR/Cas9-engineered mouse ES cells. Unlike XLN patients, but similar to two earlier mouse studies, the WASp-I292T mice had normal count of neutrophils, monocytes, B cells, CD4+ T cells, CD8+ T cells, and NK cells (Figure 1A). Administration of G-CSF into the WASp-I292T mice increased neutrophils to the comparable level to Wt mice. Similarly, lipopolysaccharide increased neutrophils and monocytes comparable to Wtmice. However, WASp-I292T neutrophils possessed a stronger ability of phagocytosis than Wt, when determined by the uptake of fluorescently pre-labeled E. coli(p=0.029) (Figure 1B). Colony forming ability of the bone marrow c-kit+, sca-1+, lin-(KSL) cells in methylcellulose containing EPO, IL-3, IL-6, and SCF was significantly impaired in mut mice (p=0.003) (Figure 1C). In the bone marrow, however, the fraction of granulocyte/monocyte progenitors (GMPs; c-kit+, sca-1-, CD34+, CD16/32-) and pre-neutrophils (c-kit+, Gr-1dim, CXCR2-, CXCR4+) were marginally increased in the mut mice (p=0.052, and p=0.006, respectively), and megakaryocyte/erythroid progenitors (MEP; c-kit+, sca-1-, CD34-, CD16/32-) was slightly decreased in the mut mice (p=0.051) (Figure 1D). These results suggested that granulopoietic potential was basically maintained in the WASp-I292T mice, but the process at the end of neutrophil production or the egression from the bone marrow were impaired. We previously reported that NB4WASp-I290T cells produces significantly fewer neutrophils following ATRA-induced differentiation. In addition, analysis of myeloid-related genes revealed a premature upregulation of C/EBP-epsilon in NB4WASp-I290T cells. Because WASp contains a nuclear localization signal-like motif in the basic domain, and confocal laser microscopy suggested that WASp-I290T preferentially localizes in the nucleus rather than cytoplasm, it is likely that WASp-I290T alters myeloid-related genes by direct or indirect interactions with transcription factors in the nucleus; although detailed mechanisms still remain to be elucidated. As compared with profound defects in XLN-patients, defects in WASp-I290T mice were quite modest, suggesting some compensatory mechanisms in the murine hematopoiesis. Further studies of transcription factors and protein-protein interactions would provide a more precise explanation. Disclosures No relevant conflicts of interest to declare.


Cell Reports ◽  
2020 ◽  
Vol 30 (3) ◽  
pp. 783-792.e5 ◽  
Author(s):  
Ju-Gyeong Kang ◽  
Cory U. Lago ◽  
Ji-Eun Lee ◽  
Ji-Hoon Park ◽  
Matthew P. Donnelly ◽  
...  

eNeuro ◽  
2019 ◽  
Vol 6 (6) ◽  
pp. ENEURO.0046-19.2019 ◽  
Author(s):  
Qing Ouyang ◽  
Lena Joesch-Cohen ◽  
Sasmita Mishra ◽  
Hasib A. Riaz ◽  
Michael Schmidt ◽  
...  

2019 ◽  
Author(s):  
Heather M. Karner ◽  
Chiu-Ho Webb ◽  
Sarah Carmona ◽  
Yu Liu ◽  
Benjamin Lin ◽  
...  

SummaryLong noncoding RNAs (lncRNAs) have been identified in all eukaryotes and are most abundant in the human genome. However, the functional importance and mechanisms of action for human lncRNAs are largely unknown. Using comparative sequence, structural, and functional analyses, we characterize the evolution and molecular function of human lncRNAJPX. We find that humanJPXand its mouse homolog, lncRNAJpx, have deep divergence in their nucleotide sequences and RNA secondary structures. Despite such differences, both lncRNAs demonstrate robust binding to CTCF, a protein that is central toJpx’s role in X chromosome inactivation. In addition, our functional rescue experiment usingJpx-deletion mutant cells, shows that humanJPXcan functionally complement the loss ofJpxin mouse embryonic stem cells. Our findings support a model for functional conservation of lncRNAs independent from sequence and structural changes. The study provides mechanistic insight into the evolution of lncRNA function.


2018 ◽  
Vol 78 (18) ◽  
pp. 5375-5383 ◽  
Author(s):  
Ji-Hoon Park ◽  
Jie Li ◽  
Matthew F. Starost ◽  
Chengyu Liu ◽  
Jie Zhuang ◽  
...  
Keyword(s):  

Hypertension ◽  
2017 ◽  
Vol 70 (suppl_1) ◽  
Author(s):  
Prasad Konkalmatt ◽  
Fei Han ◽  
Gaosi Xu ◽  
Xiaoxu Zheng ◽  
John J Gildea ◽  
...  

Some common single nucleotide polymorphisms (rs6276 and rs6277, SNPs) of the human DRD2 gene are associated with decreased D2R expression and function and increased blood pressure or hypertension. Human renal proximal tubule cells (hRPTCs) from subjects carrying these SNPs (hRPTCs-SNPs) express elevated levels of proinflammatory and profibrotic proteins, indicating that the D2R has protective effects in these cells and that decreased D2R function may contribute to the susceptibility to renal disease associated with essential hypertension. Micro RNA 4301 (miR4301) is an intronic miRNA that resides in the second intron of the primary human DRD2 transcript. A mouse homolog of miR4301 has not been identified to date. We hypothesized that miR4301 expression and function are decreased in hRPTCs-SNPs and that loss of miR4301 mediates, in part, the deleterious effects of decreased D2R function. We studied four cell lines carrying no SNPs (hRPTCs-WT) and four hRPTCs-SNPs lines. miR4301 expression was lower in hRPTCs-SNPs than in hRPTCs-WT (0.52±0.07- vs 1.03±0.14-fold; P<0.05). Silencing D2R via siRNA in hRPTCs-WT also decreased miR4301 expression (0.59±0.12- vs 1.01±0.11-fold; P<0.05). We measured the expression of several genes with pro-inflammatory and pro-fibrotic effects identified by Target 7.1 as miR4301 targets. The mRNA expressions of SMAD1 (2.7-fold); CASP2 (4.13-fold), CASP7 (3.0-fold), TGFβR1 (4.9-fold), and CTGF (7.3-fold) were increased in hRPTCs-SNPs, in comparison with hRPTCs-WT. Moreover, the mRNA expression of the miR4301 target LEF1 in hRPTCs-WT transfected with miR4301 mimic was lower (0.70±0.02 vs 1.0±0.05-fold; P<0.05) than in cells transfected with control miR, while transfection with miR4301 inhibitor increased the expression of LEF1 mRNA (1.30±0.03 vs 1.0±0.05-fold; P<0.05), compared with the control miR indicating that miR4301 represses LEF1 expression. These results show that miR4301 mediates, in part, the protective effects of D2R expression and function on renal injury by repressing the expression of genes related to fibrosis and inflammation and suggest that the function of D2R-related proteins may be dependent, as well, on the regulation of specific miR4302.


2017 ◽  
Author(s):  
Kadir A. Ozcan ◽  
Christopher E. Berndsen

AbstractBST-2/tetherin is a human extracellular transmembrane protein that serves as a host defense factor against HIV-1 and other viruses by inhibiting viral spreading. Structurally, BST-2 is a homodimeric coiled-coil that is connected to the host cell membrane by N and C terminal transmembrane anchors. The C-terminal membrane anchor of BST-2 is inserted into the budding virus while the N-terminal membrane anchor remains in the host cell membrane creating a viral tether. The structural mechanism of viral budding and tethering as mediated by BST-2 is not clear. To more fully describe the mechanism of viral tethering, we created a model of BST-2 embedded in a membrane and used steered molecular dynamics to simulate the transition from the host cell membrane associated BST-2 and the cell-virus membrane bridging form. We observed that BST-2 did not transition as a rigid structure, but instead bent at sites with a reduced interface between the helices of the coiled-coil. The simulations for the human BST-2 were then compared with simulations on the mouse homolog, which has a more stable coiled-coil. We observed that the mouse homolog spread the bending across the ectodomain, rather than breaking at discrete points as observed with the human homolog. These simulations support previous biochemical and cellular work suggesting some flexibility in the coiled-coil is necessary for viral tethering, while also highlighting how subtle changes in protein sequence can influence the dynamics and stability of proteins with overall similar structure.


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