Immunogenetics最新文献_第10页

Habitat fragmentation in the Brazilian Atlantic Forest is associated with erosion of frog immunogenetic diversity and increased fungal infections. 巴西大西洋森林栖息地的破碎化与青蛙免疫基因多样性的侵蚀和真菌感染的增加有关。

IF 2.9 4区医学

Immunogenetics Pub Date : 2022-08-01 Epub Date: 2022-01-26 DOI: 10.1007/s00251-022-01252-x

Anat M Belasen, Kevin R Amses, Rebecca A Clemons, C Guilherme Becker, L Felipe Toledo, Timothy Y James

{"title":"Habitat fragmentation in the Brazilian Atlantic Forest is associated with erosion of frog immunogenetic diversity and increased fungal infections.","authors":"Anat M Belasen, Kevin R Amses, Rebecca A Clemons, C Guilherme Becker, L Felipe Toledo, Timothy Y James","doi":"10.1007/s00251-022-01252-x","DOIUrl":"10.1007/s00251-022-01252-x","url":null,"abstract":"Habitat fragmentation and infectious diseases threaten wildlife globally, but the interactions of these threats are poorly understood. For instance, while habitat fragmentation can impact genetic diversity at neutral loci, the impacts on disease-relevant loci are less well-studied. We examined the effects of habitat fragmentation in Brazil's Atlantic Forest on amphibian genetic diversity at an immune locus related to antigen presentation and detection (MHC IIB Exon 2). We used a custom high-throughput assay to sequence a fragment of MHC IIB and quantified Batrachochytrium dendrobatidis (Bd) infections in six frog species in two Atlantic Forest regions. Habitat fragmentation was associated with genetic erosion at MHC IIB Exon 2. This erosion was most severe in forest specialists. Significant Bd infections were detected only in one Atlantic Forest region, potentially due to relatively higher elevation. In this region, forest specialists showed an increase in both Bd prevalence and infection loads in fragmented habitats. Reduced population-level MHC IIB diversity was associated with increased Bd infection risk. On the individual level, MHC IIB heterozygotes exhibited a trend toward reduced Bd infection risk, although this was marginally non-significant. Our results suggest that habitat fragmentation increases Bd infection susceptibility in amphibians, mediated at least in part through erosion of immunogenetic diversity. Our findings have implications for management of fragmented populations in the face of emerging infectious diseases.","PeriodicalId":13446,"journal":{"name":"Immunogenetics","volume":null,"pages":null},"PeriodicalIF":2.9,"publicationDate":"2022-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11344651/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39860004","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

COVID-19: impact on Public Health and hypothesis-driven investigations on genetic susceptibility and severity. 新冠肺炎：对公共卫生的影响以及对遗传易感性和严重程度的假设驱动调查。

IF 2.9 4区医学

Immunogenetics Pub Date : 2022-08-01 Epub Date: 2022-03-29 DOI: 10.1007/s00251-022-01261-w

Susana David, Guillermo Dorado, Elsa L Duarte, Stephanie David-Bosne, João Trigueiro-Louro, Helena Rebelo-de-Andrade

引用次数: 0

High-resolution human KIR genotyping. 高分辨率人类KIR基因分型。

IF 3.2 4区医学

Immunogenetics Pub Date : 2022-08-01 Epub Date: 2022-01-20 DOI: 10.1007/s00251-021-01247-0

Jonathan Downing, Lloyd D'Orsogna

{"title":"High-resolution human KIR genotyping.","authors":"Jonathan Downing, Lloyd D'Orsogna","doi":"10.1007/s00251-021-01247-0","DOIUrl":"https://doi.org/10.1007/s00251-021-01247-0","url":null,"abstract":"Killer immunoglobulin-like receptors (KIR) regulate the function of natural killer cells through interactions with various ligands on the surface of cells, thereby determining whether natural killer (NK) cells are to be activated or inhibited from killing the cell being interrogated. The genes encoding these proteins display extensive variation through variable gene content, copy number and allele polymorphism. The combination of KIR genes and their ligands is implicated in various clinical settings including haematopoietic stem cell and solid organ transplant and infectious disease progression. The determination of KIR genes has been used as a factor in the selection of optimal stem cell donors with haplotype variations in recipient and donor giving differential clinical outcomes. Methods to determine KIR genes have primarily involved ascertaining the presence or absence of genes in an individual. With the more recent introduction of massively parallel clonal next-generation sequencing and single molecule very long read length third-generation sequencing, high-resolution determination of KIR alleles has become feasible. Determining the extent and functional impact of allele variation has the potential to lead to further optimisation of clinical outcomes as well as a deeper understanding of the functional properties of the receptors and their interactions with ligands. This review summarizes recently published high-resolution KIR genotyping methods and considers the various advantages and disadvantages of the approaches taken. In addition the application of allele level genotyping in the setting of transplantation and infectious disease control is discussed.","PeriodicalId":13446,"journal":{"name":"Immunogenetics","volume":null,"pages":null},"PeriodicalIF":3.2,"publicationDate":"2022-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9262774/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39698683","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 7

Masanori Kasahara: Long-standing Immunogenetics co-editor steps down. Masanori Kasahara：长期担任免疫遗传学联合编辑的人辞职

IF 3.2 4区医学

Immunogenetics Pub Date : 2022-08-01 DOI: 10.1007/s00251-022-01265-6

Martin F Flajnik

引用次数: 0

Dynamic evolution of Mhc haplotypes in cynomolgus macaques of different geographic origins. 不同地理起源的猕猴 Mhc 单倍型的动态进化。

IF 2.9 4区医学

Immunogenetics Pub Date : 2022-08-01 Epub Date: 2022-01-27 DOI: 10.1007/s00251-021-01249-y

Natasja G de Groot, Nanine de Groot, Annemiek J M de Vos-Rouweler, Annet Louwerse, Jesse Bruijnesteijn, Ronald E Bontrop

{"title":"Dynamic evolution of Mhc haplotypes in cynomolgus macaques of different geographic origins.","authors":"Natasja G de Groot, Nanine de Groot, Annemiek J M de Vos-Rouweler, Annet Louwerse, Jesse Bruijnesteijn, Ronald E Bontrop","doi":"10.1007/s00251-021-01249-y","DOIUrl":"10.1007/s00251-021-01249-y","url":null,"abstract":"The major histocompatibility complex (MHC) plays a key role in immune defense, and the Mhc genes of cynomolgus macaque display a high degree of polymorphism. Based on their geographic distribution, different populations of cynomolgus macaques are recognized. Here we present the characterization of the Mhc class I and II repertoire of a large pedigreed group of cynomolgus macaques originating from the mainland north of the isthmus of Kra (N = 42). Segregation analyses resulted in the definition of 81 unreported Mafa-A/B/DRB/DQ/DP haplotypes, which include 32 previously unknown DRB regions. In addition, we report 13 newly defined Mafa-A/B/DRB/DQ/DP haplotypes in a group of cynomolgus macaques originating from the mainland south of the isthmus of Kra/Maritime Southeast Asia (N = 16). A relatively high level of sharing of Mafa-A (51%) and Mafa-B (40%) lineage groups is observed between the populations native to the north and the south of isthmus of Kra. At the allelic level, however, the Mafa-A/B haplotypes seem to be characteristic of a population. An overall comparison of all currently known data revealed that each geographic population has its own specific combinations of Mhc class I and II haplotypes. This illustrates the dynamic evolution of the cynomolgus macaque Mhc region, which was most likely generated by recombination and maintained by selection due to the differential pathogenic pressures encountered in different geographic areas.","PeriodicalId":13446,"journal":{"name":"Immunogenetics","volume":null,"pages":null},"PeriodicalIF":2.9,"publicationDate":"2022-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8792142/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39740600","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Correction to: Intra-specific copy number variation of MHC class II genes in the Siamese fighting fish 更正：暹罗斗鱼MHC II类基因的特异性拷贝数变异

IF 3.2 4区医学

Immunogenetics Pub Date : 2022-06-06 DOI: 10.1007/s00251-022-01267-4

Anson Tsz Chun Wong, D. Lam, Emily Shui Kei Poon, D. Chan, S. Sin

引用次数: 0

Intra-specific copy number variation of MHC class II genes in the Siamese fighting fish. 暹罗斗鱼MHCⅱ类基因的种内拷贝数变异。

IF 3.2 4区医学

Immunogenetics Pub Date : 2022-06-01 DOI: 10.1007/s00251-022-01255-8

Anson Tsz Chun Wong, Derek Kong Lam, Emily Shui Kei Poon, David Tsz Chung Chan, Simon Yung Wa Sin

{"title":"Intra-specific copy number variation of MHC class II genes in the Siamese fighting fish.","authors":"Anson Tsz Chun Wong, Derek Kong Lam, Emily Shui Kei Poon, David Tsz Chung Chan, Simon Yung Wa Sin","doi":"10.1007/s00251-022-01255-8","DOIUrl":"https://doi.org/10.1007/s00251-022-01255-8","url":null,"abstract":"Duplicates of genes for major histocompatibility complex (MHC) molecules can be subjected to selection independently and vary markedly in their evolutionary rates, sequence polymorphism, and functional roles. Therefore, without a thorough understanding of their copy number variation (CNV) in the genome, the MHC-dependent fitness consequences within a species could be misinterpreted. Studying the intra-specific CNV of this highly polymorphic gene, however, has long been hindered by the difficulties in assigning alleles to loci and the lack of high-quality genomic data. Here, using the high-quality genome of the Siamese fighting fish (Betta splendens), a model for mate choice studies, and the whole-genome sequencing (WGS) data of 17 Betta species, we achieved locus-specific amplification of their three classical MHC class II genes - DAB1, DAB2, and DAB3. By performing quantitative PCR and depth-of-coverage analysis using the WGS data, we revealed intra-specific CNV at the DAB3 locus. We identified individuals that had two allelic copies (i.e., heterozygous or homozygous) or one allele (i.e., hemizygous) and individuals without this gene. The CNV was due to the deletion of a 20-kb-long genomic region harboring both the DAA3 and DAB3 genes. We further showed that the three DAB genes were under different modes of selection, which also applies to their corresponding DAA genes that share similar pattern of polymorphism. Our study demonstrates a combined approach to study CNV within a species, which is crucial for the understanding of multigene family evolution and the fitness consequences of CNV.","PeriodicalId":13446,"journal":{"name":"Immunogenetics","volume":null,"pages":null},"PeriodicalIF":3.2,"publicationDate":"2022-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10164466","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 2

Prognostic implication and immunotherapy response prediction of a costimulatory molecule signature in kidney renal clear cell carcinoma. 肾透明细胞癌共刺激分子特征的预后意义和免疫治疗反应预测。

IF 3.2 4区医学

Immunogenetics Pub Date : 2022-06-01 Epub Date: 2022-02-04 DOI: 10.1007/s00251-021-01246-1

Gaoteng Lin, Yuanyuan Yang, Qingfu Feng, Fangfang Zhan, Chuangxin Sun, Yuanjie Niu, Gang Li

{"title":"Prognostic implication and immunotherapy response prediction of a costimulatory molecule signature in kidney renal clear cell carcinoma.","authors":"Gaoteng Lin, Yuanyuan Yang, Qingfu Feng, Fangfang Zhan, Chuangxin Sun, Yuanjie Niu, Gang Li","doi":"10.1007/s00251-021-01246-1","DOIUrl":"https://doi.org/10.1007/s00251-021-01246-1","url":null,"abstract":"Costimulatory molecules were considered to be promising and important targets in immunotherapy for various cancers. The present study was intended for generating a costimulatory molecule signature in kidney renal clear cell carcinoma (KIRC), to investigate prognostic implication, elucidate immune atlas, and predict immunotherapy response. All the KIRC samples from the TCGA were randomly divided into the training dataset and the testing dataset in the ratio of 7:3. The Cox and least absolute shrinkage and selection operator (LASSO) regression analysis were used to identify 7 key costimulatory molecules which were associated with prognosis and construct a costimulatory molecule prognostic index (CMsPI), which was validated by internal and external datasets and an independent cohort. Patients in the high-CMsPI group had high mortality. Mutation analysis showed the most common mutational genes and variant types. Immune analysis demonstrated CD8+ T cells were infiltrated at a high level in the high-CMsPI group. In combination of analysis of the immune relevant gene signature and the biomarkers of immunotherapy, we may infer there were more dysfunctional CD8+ T cells in the high-CMsPI group, and the patients of this group were less sensitive to immunotherapy. A nomogram was constructed, and the concordance index was 0.77 (95% CI: 0.74-0.79). Three key signaling pathways were identified to facilitate tumor progression. The CMsPI can be regarded as a promising biomarker for predicting individual prognosis and assessing immunotherapy response in KIRC patients.","PeriodicalId":13446,"journal":{"name":"Immunogenetics","volume":null,"pages":null},"PeriodicalIF":3.2,"publicationDate":"2022-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39889024","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 2

The S100A7 nuclear interactors in autoimmune diseases: a coevolutionary study in mammals. 自身免疫性疾病中的S100A7核相互作用:哺乳动物的共同进化研究

IF 3.2 4区医学

Immunogenetics Pub Date : 2022-06-01 Epub Date: 2022-02-16 DOI: 10.1007/s00251-022-01256-7

Fabio D'Amico, Evangelia Skarmoutsou, Massimo Libra

{"title":"The S100A7 nuclear interactors in autoimmune diseases: a coevolutionary study in mammals.","authors":"Fabio D'Amico, Evangelia Skarmoutsou, Massimo Libra","doi":"10.1007/s00251-022-01256-7","DOIUrl":"https://doi.org/10.1007/s00251-022-01256-7","url":null,"abstract":"S100A7, a member of the S100A family of Ca2+-binding proteins, is considered a key effector in immune response. In particular, S100A7 dysregulation has been associated with several diseases, including autoimmune disorders. At the nuclear level, S100A7 interacts with several protein-binding partners which are involved in transcriptional regulation and DNA repair. By using the BioGRID and GAAD databases, S100A7 nuclear interactors with a putative involvement in autoimmune diseases were retrieved. We selected fatty acid-binding protein 5 (FABP5), autoimmune regulator (AIRE), cystic fibrosis transmembrane conductance regulator (CFTR), chromodomain helicase DNA-binding protein 4 (CHD4), epidermal growth factor receptor (EGFR), estrogen receptor 1 (ESR1), histone deacetylase 2 (HDAC2), v-myc avian myelocytomatosis viral oncogene homolog (MYC), protection of telomeres protein 1 (POT1), telomeric repeat-binding factor (NIMA-interacting) 1 (TERF1), telomeric repeat-binding factor 2 (TERF2), and Zic family member 1 (ZIC1). Linear correlation coefficients between interprotein distances were calculated with MirrorTree. Coevolution clusters were also identified with the use of a recent version of the Blocks in Sequences (BIS2) algorithm implemented in the BIS2Analyzer web server. Analysis of pair positions identified interprotein coevolving clusters between S100A7 and the binding partners CFTR and TERF1. Such findings could guide further analysis to better elucidate the function of S100A7 and its binding partners and to design drugs targeting for these molecules in autoimmune diseases.","PeriodicalId":13446,"journal":{"name":"Immunogenetics","volume":null,"pages":null},"PeriodicalIF":3.2,"publicationDate":"2022-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39930804","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Defining the caprine γδ T cell WC1 multigenic array and evaluation of its expressed sequences and gene structure conservation among goat breeds and relative to cattle. 山羊γδ T细胞WC1多基因序列的确定及其在山羊品种间和相对于牛的表达序列和基因结构保守性评价

IF 3.2 4区医学

Immunogenetics Pub Date : 2022-06-01 Epub Date: 2022-02-09 DOI: 10.1007/s00251-022-01254-9

Alehegne W Yirsaw, Alexandra Gillespie, Fengqiu Zhang, Timothy P L Smith, Derek M Bickhart, Karthick P Gunasekaran, Maria Amir, Haeree Park, Janice C Telfer, Cynthia L Baldwin

{"title":"Defining the caprine γδ T cell WC1 multigenic array and evaluation of its expressed sequences and gene structure conservation among goat breeds and relative to cattle.","authors":"Alehegne W Yirsaw, Alexandra Gillespie, Fengqiu Zhang, Timothy P L Smith, Derek M Bickhart, Karthick P Gunasekaran, Maria Amir, Haeree Park, Janice C Telfer, Cynthia L Baldwin","doi":"10.1007/s00251-022-01254-9","DOIUrl":"https://doi.org/10.1007/s00251-022-01254-9","url":null,"abstract":"Workshop cluster 1 (WC1) molecules are part of the scavenger receptor cysteine-rich (SRCR) superfamily and act as hybrid co-receptors for the γδ T cell receptor and as pattern recognition receptors for binding pathogens. These members of the CD163 gene family are expressed on γδ T cells in the blood of ruminants. While the presence of WC1+ γδ T cells in the blood of goats has been demonstrated using monoclonal antibodies, there was no information available about the goat WC1 gene family. The caprine WC1 multigenic array was characterized here for number, structure and expression of genes, and similarity to WC1 genes of cattle and among goat breeds. We found sequence for 17 complete WC1 genes and evidence for up to 30 SRCR a1 or d1 domains which represent distinct signature domains for individual genes. This suggests substantially more WC1 genes than in cattle. Moreover, goats had seven different WC1 gene structures of which 4 are unique to goats. Caprine WC1 genes also had multiple transcript splice variants of their intracytoplasmic domains that eliminated tyrosines shown previously to be important for signal transduction. The most distal WC1 SRCR a1 domains were highly conserved among goat breeds, but fewer were conserved between goats and cattle. Since goats have a greater number of WC1 genes and unique WC1 gene structures relative to cattle, goat WC1 molecules may have expanded functions. This finding may impact research on next-generation vaccines designed to stimulate γδ T cells.","PeriodicalId":13446,"journal":{"name":"Immunogenetics","volume":null,"pages":null},"PeriodicalIF":3.2,"publicationDate":"2022-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39902780","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 2