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Genome Sequence of Arthrobacter globiformis B-2979 Phage JanetJ. 球形节杆菌 B-2979 噬菌体 JanetJ 的基因组序列。
microPublication biology Pub Date : 2024-11-07 eCollection Date: 2024-01-01 DOI: 10.17912/micropub.biology.001351
Arib Ahsan, Ruby S Crosthwait, Josephine J Crosthwait, Srilekha Davuluri, Omoye N Ehimare, Yihao Fan, Tiarra Nikitha Joseph Philomen Raju, Jamie Kim, Alexander Y Lee, Nicholas K Odani, Mugil V Shanmugam, Anmol Singhal, Alana J Snyder, Jessica W Sy, Grace Y Wang, George W Zhou, Christa T Bancroft
{"title":"Genome Sequence of <i>Arthrobacter globiformis B-2979</i> Phage <i>JanetJ</i>.","authors":"Arib Ahsan, Ruby S Crosthwait, Josephine J Crosthwait, Srilekha Davuluri, Omoye N Ehimare, Yihao Fan, Tiarra Nikitha Joseph Philomen Raju, Jamie Kim, Alexander Y Lee, Nicholas K Odani, Mugil V Shanmugam, Anmol Singhal, Alana J Snyder, Jessica W Sy, Grace Y Wang, George W Zhou, Christa T Bancroft","doi":"10.17912/micropub.biology.001351","DOIUrl":"10.17912/micropub.biology.001351","url":null,"abstract":"<p><p>Phage JanetJ was isolated on <i>Arthrobacter globiformis B-2979</i> and has siphovirus morphology. JanetJ's genome consists of 36,986 base pairs, encoding 52 putative protein-coding genes. JanetJ adds to the small number of previously isolated cluster FO phages, none of which encode identifiable immunity repressor or integrase functions, with the exception of phage Maja.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2024 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11582879/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142711339","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Mutation of GLP-1/Notch RAM domain results in a strong Glp-1 phenotype. GLP-1/Notch RAM 结构域的突变会导致强烈的 Glp-1 表型。
microPublication biology Pub Date : 2024-11-07 eCollection Date: 2024-01-01 DOI: 10.17912/micropub.biology.001391
Sarah L Crittenden, Stephany J Costa Dos Santos, Sindhu Battula, Judith Kimble
{"title":"Mutation of GLP-1/Notch RAM domain results in a strong Glp-1 phenotype.","authors":"Sarah L Crittenden, Stephany J Costa Dos Santos, Sindhu Battula, Judith Kimble","doi":"10.17912/micropub.biology.001391","DOIUrl":"10.17912/micropub.biology.001391","url":null,"abstract":"<p><p>The distal tip cell niche uses GLP-1 /Notch signaling to maintain <i>C. elegans</i> germline stem cells. The RAM domain, which resides within the intracellular portion of the GLP-1 /Notch receptor, is integral to formation of a signaling-dependent transcription activation complex. Here we report the generation of a mutation in the GLP-1 RAM domain, created in a GLP-1 /Notch receptor with a C-terminal V5 tag. The phenotype of <i>glp-1 (RAM <sup>mut</sup> ) <sup>V5</sup></i> homozygotes is similar to that of <i>glp-1</i> null mutants, but expression of the GLP-1 (RAM <sup>mut</sup> ) <sup>V5</sup> protein was normal in the <i>glp-1 (RAM <sup>mut</sup> ) <sup>V5</sup> </i> heterozygotes. We conclude that the RAM mutation abolishes receptor activity.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2024 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11582880/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142711561","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Separation of function mutants underline multiple roles of the Srs2 helicase/translocase in break-induced replication in Saccharomyces cerevisiae. 功能分离突变体强调了 Srs2 螺旋酶/翻译酶在酿酒酵母断裂诱导复制中的多重作用。
microPublication biology Pub Date : 2024-11-07 eCollection Date: 2024-01-01 DOI: 10.17912/micropub.biology.001369
Matteo Di Terlizzi, Giordano Liberi, Achille Pellicioli
{"title":"Separation of function mutants underline multiple roles of the Srs2 helicase/translocase in break-induced replication in <i>Saccharomyces cerevisiae</i>.","authors":"Matteo Di Terlizzi, Giordano Liberi, Achille Pellicioli","doi":"10.17912/micropub.biology.001369","DOIUrl":"10.17912/micropub.biology.001369","url":null,"abstract":"<p><p>All cells are commonly exposed to DNA double-strand breaks (DSBs), which must be properly repaired to avoid genomic instability. Break-Induced Replication (BIR) is a Homologous Recombination subpathway, which repairs DSBs resulting in mutagenesis, chromosome translocations and loss of heterozygosity. In budding yeast, the Srs2 DNA helicase/translocase plays both anti- and pro-recombination roles. Interestingly, Srs2 activities are required to support BIR completion. Here, we employ a interchromosomal BIR assay in <i>S. cerevisiae</i> to characterize Cdk1-dependent phosphorylation, ATPase and helicase activities of Srs2. Our results further expand our understanding of the multifaced role played by Srs2 in DSB recombination repair.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2024 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11582884/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142711722","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Integrator complex subunit 6 (INTS-6) mediates DNA damage response in Caenorhabditis elegans. 整合器复合体亚基 6 (INTS-6) 在秀丽隐杆线虫中介导 DNA 损伤反应。
microPublication biology Pub Date : 2024-11-06 eCollection Date: 2024-01-01 DOI: 10.17912/micropub.biology.001345
Cristina Romero-Aranda, Beatriz Sáenz-Narciso, Eva Gómez-Orte, Ángela Metola, Begoña Ezcurra, Olga Calvo, Hilde Nilsen, Antonio Miranda-Vizuete, Juan Cabello
{"title":"Integrator complex subunit 6 (INTS-6) mediates DNA damage response in <i>Caenorhabditis elegans</i>.","authors":"Cristina Romero-Aranda, Beatriz Sáenz-Narciso, Eva Gómez-Orte, Ángela Metola, Begoña Ezcurra, Olga Calvo, Hilde Nilsen, Antonio Miranda-Vizuete, Juan Cabello","doi":"10.17912/micropub.biology.001345","DOIUrl":"10.17912/micropub.biology.001345","url":null,"abstract":"<p><p>The <i>Caenorhabditis elegans</i> Integrator complex is a set of at least 13 evolutionarily conserved proteins that binds the C-terminal domain of RNA polymerase II to regulate snRNA 3'-end processing and gene expression. Here we show that the Integrator subunit 6 intervenes in the DNA damage response in <i>C. elegans</i> . We find that upon X-ray radiation, INTS-6 is necessary for RAD-51 foci formation. In addition, CDK-1 Tyr-15 phosphorylation depends on the presence of INTS-6 . This work adds a new piece to elucidate the Integrator complex mechanism of action in DNA repair.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2024 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11579701/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142689814","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
The extracellular matrix molecule Collagen XVIII/CLE-1 affects neuronal dendritic spines. 细胞外基质分子 Collagen XVIII/CLE-1 影响神经元树突棘。
microPublication biology Pub Date : 2024-11-05 eCollection Date: 2024-01-01 DOI: 10.17912/micropub.biology.001331
Michele Lemons L, Hailey McKillop, Noelia Genao, Michael Francis M
{"title":"The extracellular matrix molecule Collagen XVIII/CLE-1 affects neuronal dendritic spines.","authors":"Michele Lemons L, Hailey McKillop, Noelia Genao, Michael Francis M","doi":"10.17912/micropub.biology.001331","DOIUrl":"10.17912/micropub.biology.001331","url":null,"abstract":"<p><p>The extracellular matrix (ECM) is a rich collection of macromolecules that influences numerous cellular functions; however, its roles at neuronal synapses are not fully understood. Using dendritic spines of <i>Caenorhabditis elegans</i> GABAergic neurons as a model, we found that the ECM component Collagen XVIII/ CLE-1 is localized in close proximity to dendritic spines and is important for their normal development and maintenance. Specific expression of <i>cle-1</i> in GABAergic neurons partially rescued the reduction in spine number in <i>cle-1 ( cg120 )</i> mutants <i>.</i> Together, our findings suggest that Collagen XVIII/ CLE-1 regulates dendritic spines, in part through local CLE-1 deposition from GABAergic neurons.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2024 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11577049/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142683816","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A Comparative Study of Life History Traits in C. briggsae and C. elegans. C.briggsae和C.elegans生活史特征的比较研究
microPublication biology Pub Date : 2024-11-01 eCollection Date: 2024-01-01 DOI: 10.17912/micropub.biology.001299
Nikita Jhaveri, Harvir Bhullar, Bhagwati Gupta
{"title":"A Comparative Study of Life History Traits in <i>C. briggsae</i> and <i>C. elegans</i>.","authors":"Nikita Jhaveri, Harvir Bhullar, Bhagwati Gupta","doi":"10.17912/micropub.biology.001299","DOIUrl":"10.17912/micropub.biology.001299","url":null,"abstract":"<p><p>The nematodes <i>C. elegans</i> and <i>C. briggsae</i> are key models for genetic studies. Despite their overall similar morphology, these two species exhibit notable differences. We used the isolates from tropical ( AF16 and QX1410 ) and temperate ( HK104 and VX34 ) regions to characterize the life history traits of <i>C. briggsae</i> . Our findings reveal significant variations in body dimensions, movement patterns, utse morphology, and lipid contents across isolates, highlighting species-level distinctions that further establish <i>C. briggsae</i> as a valuable comparative model for genetic research.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2024 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11565226/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142649596","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
The atypical soluble guanylyl cyclase subunit Gyc89Db does not control neuroepithelial proliferation in Drosophila larval brain. 非典型可溶性鸟苷酸环化酶亚基Gyc89Db不能控制果蝇幼虫大脑神经上皮细胞的增殖
microPublication biology Pub Date : 2024-11-01 eCollection Date: 2024-01-01 DOI: 10.17912/micropub.biology.001336
Mariel Rosas, Rafael Cantera, Daniel Prieto
{"title":"The atypical soluble guanylyl cyclase subunit Gyc89Db does not control neuroepithelial proliferation in <i>Drosophila</i> larval brain.","authors":"Mariel Rosas, Rafael Cantera, Daniel Prieto","doi":"10.17912/micropub.biology.001336","DOIUrl":"10.17912/micropub.biology.001336","url":null,"abstract":"<p><p>We investigated the role of oxygen-sensing atypical guanylyl cyclase subunit Gyc89Db in the developing brain. Despite its expression in the hypoxic neuroepithelium of the larval optic lobe of <i>Drosophila</i> , loss-of-function mutants and ectopic expression did not alter neuroepithelial cell number or proliferation. Notably, while ectopic expression of <i>Gyc89Db</i> increases optic lobe volume and neuroblast numbers, our negative results suggest that these effects manifest earlier in development without persistent alteration of the neuroepithelium, through mechanisms that might be independent of neuroepithelial proliferation.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2024 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11568450/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142649604","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Human SVIP is sufficient to stimulate tubular lysosomes and extend healthspan in well-fed Caenorhabditis elegans. 人类 SVIP 足以刺激管状溶酶体，并延长喂养良好的秀丽隐杆线虫的健康寿命。
microPublication biology Pub Date : 2024-11-01 eCollection Date: 2024-01-01 DOI: 10.17912/micropub.biology.001379
Joshua P Gill, Kathryn R DeLeo, K Adam Bohnert, Alyssa E Johnson
{"title":"Human <i>SVIP</i> is sufficient to stimulate tubular lysosomes and extend healthspan in well-fed <i>Caenorhabditis elegans</i>.","authors":"Joshua P Gill, Kathryn R DeLeo, K Adam Bohnert, Alyssa E Johnson","doi":"10.17912/micropub.biology.001379","DOIUrl":"10.17912/micropub.biology.001379","url":null,"abstract":"<p><p>Small VCP Interacting Protein (SVIP) is essential for maintaining a unique form of tubular lysosomes (TLs) in <i>Drosophila</i> . Although <i>Caenorhabditis elegans</i> do not have an annotated <i>SVIP</i> ortholog, expression of <i>Drosophila SVIP</i> in the <i>C. elegans</i> intestine induces TLs constitutively, increases autophagic activity, and extends healthspan. Here, we find that expression of the human ortholog of <i>SVIP</i> in the <i>C. elegans</i> gut causes similar physiological and phenotypic effects as <i>Drosophila SVIP</i> , albeit some effects were less pronounced. These results demonstrate that human <i>SVIP</i> can induce functional TLs in <i>C. elegans</i> but may be a weaker allele compared to <i>Drosophila SVIP</i> .</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2024 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11568451/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142649599","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Analysis of the genome-editing activity of microinjected CRISPR/Cas9 ribonucleoprotein complexes in Daphnia pulex. 分析微注射 CRISPR/Cas9 核糖核蛋白复合物在水蚤中的基因组编辑活性。
microPublication biology Pub Date : 2024-10-30 eCollection Date: 2024-01-01 DOI: 10.17912/micropub.biology.001310
Megan E Maar, Jay C Miller, Michael Lynch, Andrew C Zelhof
{"title":"Analysis of the genome-editing activity of microinjected CRISPR/Cas9 ribonucleoprotein complexes in <i>Daphnia pulex</i>.","authors":"Megan E Maar, Jay C Miller, Michael Lynch, Andrew C Zelhof","doi":"10.17912/micropub.biology.001310","DOIUrl":"10.17912/micropub.biology.001310","url":null,"abstract":"<p><p>Although <i>Daphnia</i> is a widely used model organism with a completely sequenced genome, molecular tools for analyzing specific gene functions are still being developed. Progress has been made in developing CRISPR/Cas9 gene editing in <i>Daphnia</i> . However, the gene-editing activity of injected ribonucleoprotein complexes (RNPs), the success of co-injected RNPs with different gRNAs, and the heritability of mutations in asexual progeny need further investigation. Here, we show prolonged Cas9 RNP activity past the one-cell stage injected individuals, leading to a wide range of somatic mutations, and germline mosaicism of heritable biallelic mutations.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2024 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11561552/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142633811","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Grafting glycoprotein-derived oligosaccharides structures onto non-glycosylated polypeptides. 将糖蛋白衍生的寡糖结构嫁接到非糖基化多肽上。
microPublication biology Pub Date : 2024-10-30 eCollection Date: 2024-01-01 DOI: 10.17912/micropub.biology.001314
Danya Medina-Carrasco, Lisandra García de Castro Cuspineda, Luis Gabriel González-Lodeiro, Satomy Pousa, Miladys Limonta, Vivian Huerta Galindo
{"title":"Grafting glycoprotein-derived oligosaccharides structures onto non-glycosylated polypeptides.","authors":"Danya Medina-Carrasco, Lisandra García de Castro Cuspineda, Luis Gabriel González-Lodeiro, Satomy Pousa, Miladys Limonta, Vivian Huerta Galindo","doi":"10.17912/micropub.biology.001314","DOIUrl":"10.17912/micropub.biology.001314","url":null,"abstract":"<p><p>Properties of recombinant glycoproteins can be altered by the addition of oligosaccharide structures specific to the cells used for its heterologous expression. A methodology was implemented to obtain a glycopeptide preparation useful to elucidate the role of carbohydrates in the immunogenicity and antigenicity of glycoproteins. It consists on the digestion of the protein, followed by selective capture of the oligosaccharides bound to di-/tripeptides, and their grafting onto a non-glycosylated receptor protein by chemical crosslinking. Glycopeptides derived from C-RBD-H6 PP protein, the active ingredient of the Abdala vaccine were efficiently grafted onto a non-glycosylated protein as evidenced by western blotting.</p>","PeriodicalId":74192,"journal":{"name":"microPublication biology","volume":"2024 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11561553/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142633766","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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