Rafael Dias de Moura, Priscilla Doria de Mattos, Penélope Ferreira Valente, Nícolas Carlos Hoch
{"title":"Molecular mechanisms of cell death by parthanatos: More questions than answers.","authors":"Rafael Dias de Moura, Priscilla Doria de Mattos, Penélope Ferreira Valente, Nícolas Carlos Hoch","doi":"10.1590/1678-4685-GMB-2023-0357","DOIUrl":"10.1590/1678-4685-GMB-2023-0357","url":null,"abstract":"<p><p>Regulated cell death by a non-apoptotic pathway known as parthanatos is increasingly recognised as a central player in pathological processes, including ischaemic tissue damage and neurodegenerative diseases. Parthanatos is activated under conditions that induce high levels of DNA damage, leading to hyperactivation of the DNA damage sensor PARP1. While this strict dependence on PARP1 activation is a defining feature of parthanatos that distinguishes it from other forms of cell death, the molecular events downstream of PARP1 activation remain poorly understood. In this mini-review, we highlight a number of important questions that remain to be answered about this enigmatic form of cell death.</p>","PeriodicalId":12557,"journal":{"name":"Genetics and Molecular Biology","volume":null,"pages":null},"PeriodicalIF":1.7,"publicationDate":"2024-08-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11445734/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142361407","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Flavia Gobetti Gomes, Juliano André Boquett, Thayne Woycinck Kowalski, João Matheus Bremm, Marcus Silva Michels, Luiza Pretto, Marília Körbes Rockenbach, Fernanda Sales Luiz Vianna, Lavinia Schuler-Faccini, Maria Teresa Vieira Sanseverino, Lucas Rosa Fraga
{"title":"From bench to in silico and backwards: What have we done on genetics of recurrent pregnancy loss and implantation failure and where should we go next?","authors":"Flavia Gobetti Gomes, Juliano André Boquett, Thayne Woycinck Kowalski, João Matheus Bremm, Marcus Silva Michels, Luiza Pretto, Marília Körbes Rockenbach, Fernanda Sales Luiz Vianna, Lavinia Schuler-Faccini, Maria Teresa Vieira Sanseverino, Lucas Rosa Fraga","doi":"10.1590/1678-4685-GMB-2023-0127","DOIUrl":"10.1590/1678-4685-GMB-2023-0127","url":null,"abstract":"<p><p>Human reproduction goes through many challenges to its success and in many cases it fails. Cases of pregnancy loss are common outcomes for pregnancies, and implantation failures (IF) are common in assisted reproduction attempts. Although several risk factors have already been linked to adverse outcomes in reproduction, many cases remain without a definitive cause. Genetics of female reproduction is a field that may bring some pieces of this puzzle; however, there are no well-defined genes that might be related to the risk for recurrent pregnancy loss (RPL) and IF. Here, we present a literature review of the studies of genetic association in RPL and IF carried out in the Brazilian population and complemented with a database search to explore genes previously related to RPL and IF, where a search for genes previously involved in these conditions was performed in OMIM, HuGE, and CTD databases. Finally, we present the next steps for reproductive genetics investigation, through genomic sequencing analyses and discuss future plans in the study of RPL genetics. The combined strategy of looking for literature and databases is useful to raise hypotheses and to identify underexplored genes related to RPL and IF.</p>","PeriodicalId":12557,"journal":{"name":"Genetics and Molecular Biology","volume":null,"pages":null},"PeriodicalIF":1.7,"publicationDate":"2024-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11346592/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142072459","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Eudes Maria Stiehl-Alves,Ariane Tonetto Vieira,Caroline Trevelin,Alexandre Cristante Martins,Tatiana Teixeira de Souza-Chies,Eliane Kaltchuk-Santos
{"title":"Can ploidy levels explain the variation of Herbertia lahue (Iridaceae)?","authors":"Eudes Maria Stiehl-Alves,Ariane Tonetto Vieira,Caroline Trevelin,Alexandre Cristante Martins,Tatiana Teixeira de Souza-Chies,Eliane Kaltchuk-Santos","doi":"10.1590/1678-4685-gmb-2023-0137","DOIUrl":"https://doi.org/10.1590/1678-4685-gmb-2023-0137","url":null,"abstract":"Polyploidy is often related with phenotypic variation, as observed in Herbertia lahue, a geophyte species. This study examined the H. lahue polyploid series and departure in cytogenetic, morphometric, and pollen data. Diploids (2n=2x=14) present bimodal karyotype with two long and five short chromosome pairs, while hexaploids (2n=6x=42) and octoploids (2n=8x=56) present a gradual decrease in chromosome size. All cytotypes have CMA+/DAPI- bands co-localized with 18S rDNA sites in the satellite region (no DAPI+ bands in any cytotype). Unlike diploids and octoploids, 5S rDNA interstitial sites in hexaploids are not in a syntenic position with 18S rDNA sites. Genome size is effective as an indirect predictor of the cytotypes since 2C-values increased according to ploidy level. The reduction in the number of the rDNA sites in polyploids associated with their lower 1Cx-values compared to diploids may suggest a genome downsizing process. Morphometric analysis revealed significant differences among cytotypes, and discriminant analysis identified three morphometric groupings corresponding to the cytotypes. The phenotypic variation observed in pollen grains, bulbs, and ovary characters suggested the gigas effect. Concluding, remarkable differentiation was observed at both genomic and phenotypic characters in all the cytotypes analyzed, suggesting a possible ongoing speciation process in H. lahue.","PeriodicalId":12557,"journal":{"name":"Genetics and Molecular Biology","volume":null,"pages":null},"PeriodicalIF":2.1,"publicationDate":"2024-08-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142227042","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Genetic analysis and preliminary mapping by BSA-seq of the CmSR gene regulating the spotted rind trait in melon (Cucumis melo L.).","authors":"Weiyan Zhang, Huijun Zhang, Xiuxiu Zhu, Yahui Li, Guoliang Yuan, Jian Ma","doi":"10.1590/1678-4685-GMB-2024-0062","DOIUrl":"10.1590/1678-4685-GMB-2024-0062","url":null,"abstract":"<p><p>Melon (Cucumis melo L.) is an economically important horticultural crop. Spotted rind at maturity is an important appearance quality trait in melons. However, the gene controlling this trait remains unknown. In this study, the inheritance pattern of this trait was explored, and the candidate gene underlying this trait was also successfully identified. Genetic analysis showed that a single dominant gene, Cucumis melo Spotted Rind (CmSR), regulates the spotted rind trait. A preliminary genetic mapping analysis was conducted based on a BSA-seq approach. The CmAPRR2 gene was identified to be linked with the spotted rind trait and was located on the short arm of chromosome 4. It harbored two single-nucleotide mutations (chr4: 687014 G/A and chr4: 687244 C/A) in the non-spotted line 'Yellow 2', which may result in the alternative splicing of the transcript and an amino acid change in the respective protein, from proline to glutamine, respectively. Moreover, marker SNP687014-G/A was developed and co-segregated with the spotted rind trait. Therefore, it is speculated that the CmAPRR2 gene may be involved in the regulation of the spotted rind trait in melon. This study provides a theoretical foundation for further research on the gene regulatory mechanism of the rind color in melon.</p>","PeriodicalId":12557,"journal":{"name":"Genetics and Molecular Biology","volume":null,"pages":null},"PeriodicalIF":1.7,"publicationDate":"2024-08-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11334433/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142004042","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Janaelia Ferreira Vasconcelos Rodrigues, Jessica Maria Leite Dos Santos, Gracielle Araújo Frota, Luiz da Silva Vieira, Marcel Teixeira, Magaly Sales Monteiro, Jomar Patrício Monteiro
{"title":"Expression of transporter genes in anthelmintic resistant isolates of Haemonchus contortus.","authors":"Janaelia Ferreira Vasconcelos Rodrigues, Jessica Maria Leite Dos Santos, Gracielle Araújo Frota, Luiz da Silva Vieira, Marcel Teixeira, Magaly Sales Monteiro, Jomar Patrício Monteiro","doi":"10.1590/1678-4685-GMB-2023-0350","DOIUrl":"10.1590/1678-4685-GMB-2023-0350","url":null,"abstract":"<p><p>ATP-binding cassette (ABC) transporters, including P-glycoproteins (PGP), have been implicated in drug resistance in different organisms including Haemonchus contortus. This study confirmed the resistance status of H. contortus isolates selected for ivermectin (IVM) and oxfendazole (OXF) resistances using the fecal egg count reduction test and evaluated the gene expression of seven ABC transporters using RT-qPCR for two biological scenarios: the effect of selection for anthelmintic resistance and the effect of drug exposure on gene expression. Gene expression results showed that selection for IVM resistance led to the significant upregulation of Hco-pgp-9a (1.5-fold), Hco-pgp-11 (3-fold) and Hco-haf-9 (1.5-fold) (p < 0.05). Similarly, selection for OXF resistance led to the significant upregulation of Hco-pgp-9a (3-fold), Hco-pgp-11 (4-fold) and Hco-haf-9 (2-fold) when comparing with the unselected ISE isolate (p < 0.05). Exposure of selected isolates to anthelmintics lead to no significant upregulation of the studied transporter genes. We also observed instances where there was strong intragroup variation regarding samples originating from parasites obtained from different individual hosts pointing that the interactions of the animal host with the tested anthelmintics may also play a role in the expression of the studied nematode genes.</p>","PeriodicalId":12557,"journal":{"name":"Genetics and Molecular Biology","volume":null,"pages":null},"PeriodicalIF":1.7,"publicationDate":"2024-08-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11331566/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141999755","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Erratum: Investigating the shared genetic architecture between breast and ovarian cancers.","authors":"","doi":"10.1590/1678-4685-GMB-2023-0181er","DOIUrl":"10.1590/1678-4685-GMB-2023-0181er","url":null,"abstract":"<p><p>[This corrects the article doi: 10.1590/1678-4685-GMB-2023-0181].</p>","PeriodicalId":12557,"journal":{"name":"Genetics and Molecular Biology","volume":null,"pages":null},"PeriodicalIF":1.7,"publicationDate":"2024-08-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11331563/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141999754","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Lucas Alexandre Barbosa de Oliveira Santos, Tales de Albuquerque Leite Feitosa, Marcus Vinicius de Aragão Batista
{"title":"Comparative structural studies on Bovine papillomavirus E6 oncoproteins: Novel insights into viral infection and cell transformation from homology modeling and molecular dynamics simulations.","authors":"Lucas Alexandre Barbosa de Oliveira Santos, Tales de Albuquerque Leite Feitosa, Marcus Vinicius de Aragão Batista","doi":"10.1590/1678-4685-GMB-2023-0346","DOIUrl":"10.1590/1678-4685-GMB-2023-0346","url":null,"abstract":"<p><p>Bovine papillomavirus (BPV) infects cattle cells worldwide, leading to hyperproliferative lesions and the potential development of cancer, driven by E5, E6, and E7 oncoproteins along with other cofactors. E6 oncoprotein binds experimentally to various proteins, primarily paxillin and MAML1, as well as hMCM7 and CBP/p300. However, the molecular and structural mechanisms underlying BPV-induced malignant transformation remain unclear. Therefore, we have modeled the E6 oncoprotein structure from non-oncogenic BPV-5 and compared them with oncogenic BPV-1 to assess the relationship between structural features and oncogenic potential. Our analysis elucidated crucial structural aspects of E6, highlighting both conserved elements across genotypes and genotype-specific variations potentially implicated in the oncogenic process, particularly concerning primary target interactions. Additionally, we predicted the location of the hMCM7 binding site on the N-terminal of BPV-5 E6. This study enhances our understanding of the structural characteristics of BPV E6 oncoproteins and their interactions with host proteins, clarifying structural differences and similarities between high and low-risk BPVs. This is important to understand better the mechanisms involved in cell transformation in BPV infection, which could be used as a possible target for therapy.</p>","PeriodicalId":12557,"journal":{"name":"Genetics and Molecular Biology","volume":null,"pages":null},"PeriodicalIF":1.7,"publicationDate":"2024-08-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11320664/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141970949","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Glenda Nicioli da Silva, Isadora Oliveira Ansaloni Pereira, Ana Paula Braga Lima, Tamires Cunha Almeida, André Luiz Ventura Sávio, Renato Prado Costa, Kátia Ramos Moreira Leite, Daisy Maria Fávero Salvadori
{"title":"Combined expression of JHDM1D/KDM7A gene and long non-coding RNA RP11-363E7.4 as a biomarker for urothelial cancer prognosis.","authors":"Glenda Nicioli da Silva, Isadora Oliveira Ansaloni Pereira, Ana Paula Braga Lima, Tamires Cunha Almeida, André Luiz Ventura Sávio, Renato Prado Costa, Kátia Ramos Moreira Leite, Daisy Maria Fávero Salvadori","doi":"10.1590/1678-4685-GMB-2023-0265","DOIUrl":"10.1590/1678-4685-GMB-2023-0265","url":null,"abstract":"<p><p>Bladder cancer is the tenth most frequently diagnosed cancer globally. Classification of high- or low-grade tumors is based on cytological differentiation and is an important prognostic factor. LncRNAs regulate gene expression and play critical roles in the occurrence and development of cancer, however, there are few reports on their diagnostic value and co-expression levels with genes, which may be useful as specific biomarkers for prognosis and therapy in bladder cancer. Thus, we performed a marker lesion study to investigate whether gene/lncRNA expression in urothelial carcinoma tissues may be useful in differentiating low-grade and high-grade tumors. RT-qPCR was used to evaluate the expression of the JHDM1D gene and the lncRNAs CTD-2132N18.2, SBF2-AS1, RP11-977B10.2, CTD-2510F5.4, and RP11-363E7.4 in 20 histologically diagnosed high-grade and 10 low-grade tumors. A protein-to-protein interaction network between genes associated with JHDM1D gene was constructed using STRING website. The results showed a moderate (positive) correlation between CTD-2510F5.4 and CTD2132N18.2. ROC curve analyses showed that combined JHDM1D and RP11-363E7.4 predicted tumor grade with an AUC of 0.826, showing excellent accuracy. In conclusion, the results indicated that the combined expression of JHDM1D and RP11-363E7.4 may be a prognostic biomarker and a promising target for urothelial tumor therapy.</p>","PeriodicalId":12557,"journal":{"name":"Genetics and Molecular Biology","volume":null,"pages":null},"PeriodicalIF":1.7,"publicationDate":"2024-08-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11320665/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141970948","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Samara Socorro Silva Pereira, Irene Plaza Pinto, Victor Cortázio do Prado Santos, Rafael Carneiro Silva, Emília Oliveira Alves Costa, Alex Silva da Cruz, Aparecido Divino da Cruz, Cláudio Carlos da Silva, Lysa Bernardes Minasi
{"title":"Analysis of parental origin of de novo pathogenic CNVs in patients with intellectual disability.","authors":"Samara Socorro Silva Pereira, Irene Plaza Pinto, Victor Cortázio do Prado Santos, Rafael Carneiro Silva, Emília Oliveira Alves Costa, Alex Silva da Cruz, Aparecido Divino da Cruz, Cláudio Carlos da Silva, Lysa Bernardes Minasi","doi":"10.1590/1678-4685-GMB-2023-0313","DOIUrl":"10.1590/1678-4685-GMB-2023-0313","url":null,"abstract":"<p><p>Chromosomal Microarray Analysis (CMA) has increased the comprehension of the mechanisms of copy number variation (CNV) formation, classification of these rearrangements, type of recurrence, and its origin, and has also been a powerful approach to identifying CNVs in individuals with intellectual disability. The aim of this study was to establish the parental origin of de novo pathogenic CNV in a cohort of patients with intellectual disability from the public health system of Goiás-Brazil. CMA was done in 76 trios and we identified 15 de novo pathogenic CNVs in 12 patients with intellectual disability. In a total of 15 de novo pathogenic CNV, 60% were derived from the maternal germline and 40% from the paternal germline. CNV flanked by low copy repeats (LCR) were identified in 46.7% and most of them were of maternal origin. No significant association was observed between paternal age and the mutation rate of de novo CNVs. The presence of high-identity LCRs increases the occurrence of CNV formation mediated by non-allelic homologous recombination and the majority of paternal CNVs are non-recurrent. The mechanism of formation of these CNV may have been by microhomology-mediated break-induced replication or non-homologous end joining.</p>","PeriodicalId":12557,"journal":{"name":"Genetics and Molecular Biology","volume":null,"pages":null},"PeriodicalIF":1.7,"publicationDate":"2024-08-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11320663/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141970947","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Jean Carlo Pedroso de Oliveira, Gustavo Sebastián Cabanne, Fabrício Rodrigues Santos
{"title":"Phylogenomics of the gray-breasted sabrewing (Campylopterus largipennis) species complex in the Amazonia and Cerrado biomes.","authors":"Jean Carlo Pedroso de Oliveira, Gustavo Sebastián Cabanne, Fabrício Rodrigues Santos","doi":"10.1590/1678-4685-GMB-2023-0331","DOIUrl":"10.1590/1678-4685-GMB-2023-0331","url":null,"abstract":"<p><p>The Neotropics are one of the most biodiverse regions of the world, where environmental dynamics, climate and geology resulted in a complex diversity of fauna and flora. In such complex and heterogeneous environments, widely distributed species require deep investigation about their biogeographic history. The gray-breasted sabrewing hummingbird Campylopterus largipennis is a species complex that occurs in forest and open ecosystems of South America, including also high-altitude grasslands. It has been recently split into four distinct species distributed in Amazonia (rainforest) and Cerrado (savanna) biomes with boundaries marked by ecological barriers. Here, we investigated the evolutionary dynamics of population lineages within this neotropical taxon to elucidate its biogeographical history and current lineage diversity. We used a reduced-representation sequencing approach to perform fine-scale population genomic analyses of samples distributed throughout Amazonia and Cerrado localities, representing all four recently recognized species. We found a deep genetic structure separating species from both biomes, and a more recent divergence between species within each biome and from distinct habitats. The population dynamics through time was shown to be concordant with known vicariant events, isolation by distance, and altitudinal breaks, where the Amazon River and the Espinhaço Mountain Range worked as important barriers associated to speciation.</p>","PeriodicalId":12557,"journal":{"name":"Genetics and Molecular Biology","volume":null,"pages":null},"PeriodicalIF":1.7,"publicationDate":"2024-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11308382/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141916542","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}