Article
Plant Sciences
Duilio Iamonico, Olga De Castro, Emanuela Di Iorio, Gianluca Nicolella, Mauro Iberite
Summary: This study investigates four endemic species from the Tyrrhenian coast of central Italy and the Ponziane Archipelago using molecular and morphometric analyses. The results provide new information about the taxonomy of these species and suggest that they should be considered as a single species entity.
Article
Evolutionary Biology
Antonio Zurita, Cristina Cutillas
Summary: Ctenophthalmus is considered the largest genus within the Order Siphonaptera, with males being the only ones identifiable at species and subspecies levels using morphological criteria. Molecular and phylogenetic data for this genus are scarce. Combining nuclear and mitochondrial markers proved to be a useful tool for differentiating among different subspecies within the Ctenophthalmus genus.
ORGANISMS DIVERSITY & EVOLUTION
(2021)
Article
Fisheries
Massimo Lorenzoni, Antonella Carosi, Silvia Quadroni, Vanessa De Santis, Isabella Vanetti, Giovanni B. Delmastro, Serena Zaccara
Summary: Through molecular and morphological analyses, two fluviolacustrine lineages in southern Italy were determined to be distinct endemic species, resulting in the proposal of the new species Barbus samniticus sp. nov. and the revalidation of Barbus fucini.
JOURNAL OF FISH BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Marco Tigano, Danielle C. Vargas, Samuel Tremblay-Belzile, Yi Fu, Agnel Sfeir
Summary: The study reveals that mtDSBs activate a type-I interferon response, leading to the phosphorylation of STAT1 and activation of interferon-stimulated genes. After breaks in mtDNA, herniation mediated by BAX and BAK releases mitochondrial RNA into the cytoplasm and triggers a RIG-I-MAVS-dependent immune response.
Article
Genetics & Heredity
Renkui Bai, Hong Cui, Joseph M. Devaney, Katrina M. Allis, Amanda M. Balog, Xinyue Liu, Rhonda E. Schnur, Faye L. Shapiro, Ariel Brautbar, Juvianee Estrada-Veras, Laurel Hochstetler, Allyn McConkie-Rosell, Marie T. McDonald, Benjamin D. Solomon, Sean Hofherr, Gabriele Richard, Sharon F. Suchy
Summary: Reports questioning the traditional belief of exclusive maternal transmission of human mtDNA have sparked debates, with recent findings suggesting a potential biparental transmission mode. The observed paternal origin of mitochondrial haplogroups is likely due to rare coamplification of nuclear mtDNA segments during testing. Further research is needed to clarify the clinical significance of these findings.
GENETICS IN MEDICINE
(2021)
Review
Biochemistry & Molecular Biology
Liying Xue, Jesse D. Moreira, Karan K. Smith, Jessica L. Fetterman
Summary: Nuclear-mitochondrial DNA segments (NUMTs) are fragments of mtDNA that have been inserted into the nuclear genome. They can contaminate mtDNA sequencing results and introduce false positive variants. This review discusses their prevalence, mechanisms of de novo insertion, and approaches for minimizing contamination. Both wet lab-based and computational methods can be used to filter NUMTs, and multiple approaches should be applied for effective identification.
Article
Biochemistry & Molecular Biology
Sung-Ik Cho, Seonghyun Lee, Young Geun Mok, Kayeong Lim, Jaesuk Lee, Ji Min Lee, Eugene Chung, Jin-Soo Kim
Summary: Mitochondrial DNA editing is crucial for modeling mitochondrial genetic disorders and potential future treatments. This study presents a new editing enzyme called TALEDs, which efficiently induce A-to-G editing in human mitochondria.
Article
Environmental Sciences
Kuttan Kuravamparambu Anikuttan, Palsamy Rameshkumar, Abdul Khudus Nazar, Rengarajan Jayakumar, Govindan Tamilmani, Mohammed Sakthivel, Murugesan Sankar, Rajendran Bavithra, Belevendran Johnson, Nataraj Krishnaveni, Augustin Angela Mercy, Nallathambi Moulitharan, Gunasekharan Iyyapparaja Narasimapallavan, Tinto Thomas, Galinki Hanumanta Rao, Muthu Jayasingh, Imelda Joseph, Boby Ignatius, Kuttan Madhu, Achamveetil Gopalakrishnan
Summary: The global marine ornamental fish trade is mainly dependent on wild collected fishes, with less than 10% contribution from hatchery production. Hatchery production is considered the sustainable option to reduce fishing pressure and protect coral reef ecosystem. Ambiguities still exist regarding the production and taxonomic identity of designer clown fishes.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Environmental Sciences
Lucinda A. Quigley, Paul E. Caiger, Annette F. Govindarajan, Helena McMonagle, J. Michael Jech, Andone C. Lavery, Heidi M. Sosik, Joel K. Llopiz
Summary: Despite growing interest in harvesting potential resources, research on fish diversity and ecology in the ocean's mesopelagic zone is limited. This study assembled a species-specific image library of sagittal otoliths from 70 mesopelagic fishes, documenting and photographing otoliths from 12 species for the first time. Using a combination of morphological characters and DNA barcoding, the fish were identified to species. The otolith image library, along with otolith-size to fish-length relationships, can be used for prey identification and fish size estimation, providing a valuable tool for studying food webs in the poorly understood mesopelagic zone. Additionally, the generated fish barcodes contribute to existing public databases and enable further analysis of cryptic species and metabarcoding.
FRONTIERS IN MARINE SCIENCE
(2023)
Article
Genetics & Heredity
Catarina Xavier, Charlotte Sutter, Christina Amory, Harald Niederstaetter, Walther Parson
Summary: The accurate quantification of DNA in forensic samples is essential, and it is recommended to use the appropriate analysis route with optimum DNA amount. DNA quantification provides information about degradation stage and aids in choosing suitable genotyping methods. The new qPCR method, NuMY, allows parallel quantification of human nuclear and mitochondrial DNA, assessing the male portion in mixtures and testing for PCR inhibition. It is a reliable tool for challenging forensic samples.
Article
Biochemistry & Molecular Biology
Mads Reinholdt Jensen, Eva Egelyng Sigsgaard, Shenglin Liu, Andrea Manica, Steffen Sanvig Bach, Michael Moller Hansen, Peter Rask Moller, Philip Francis Thomsen
Summary: The study developed target capture probes for whale shark eDNA sampling, successfully retrieving complete mitochondrial genomes and numerous nuclear loci from aquatic samples. Careful probe design and consideration of target and nontarget sequences are crucial for efficient extraction of population genomic data.
MOLECULAR ECOLOGY RESOURCES
(2021)
Article
Biochemistry & Molecular Biology
Xiaoteng Fan, Tao Yan, Tingting Hou, Xiaofan Xiong, Leilei Feng, Shiyi Li, Zaizhao Wang
Summary: This study investigated the changes in fish mitochondria upon serum deprivation using zebrafish embryonic fibroblast cells. The results showed that mitochondrial content and membrane potential were reduced, and intracellular ROS levels were increased in serum deprivation treated fish cells. The impaired mitochondria had rough and fracted outer membranes, and fused mitochondria were frequently observed. The mRNA expressions of mitochondrial fusion genes (mfn1b, mfn2, and opa1) were upregulated. The mtDNA copy numbers of mtatp6, mtcox1, mtcytb, mtnd4, and mtnd6 were significantly reduced, but the mRNA expressions of these genes increased, indicating compensatory effects in mitochondria. Moreover, the methylation of whole mtDNA was found to be increased, reflecting the instability of fish mtDNA with mitochondrial dysfunction under nutrient fluctuations. Overall, these findings suggest that fish health may be significantly affected during aquaculture processes due to profound and long-lasting deficits in mitochondrial response to external variables.
FISH PHYSIOLOGY AND BIOCHEMISTRY
(2022)
Article
Multidisciplinary Sciences
Mizuki Horoiwa, Ixchel F. Mandagi, Nobu Sutra, Javier Montenegro, Fadly Y. Tantu, Kawilarang W. A. Masengi, Atsushi J. Nagano, Junko Kusumi, Nina Yasuda, Kazunori Yamahira
Summary: Sulawesi, an island with complex geological history, has fostered unique evolutionary processes for ricefishes, resulting in potential ancient admixture between phylogenetically distant species due to habitat fusion and fragmentation. This study demonstrates ancient admixture between Oryzias eversi and O. sarasinorum, supporting the idea that geological events have facilitated island-wide admixture of lacustrine organisms in Sulawesi.
Article
Obstetrics & Gynecology
Xi Ling, Haonan Cui, Qing Chen, Wang Yang, Peng Zou, Huan Yang, Niya Zhou, Jiuyang Deng, Jinyi Liu, Jia Cao, Lin Ao
Summary: This study investigates the association between sperm telomere length (STL) and sperm nuclear DNA damage and mitochondrial DNA abnormalities. The results show that STL is related to sperm nuclear DNA integrity and mitochondrial DNA abnormalities in healthy young college students.
HUMAN REPRODUCTION
(2023)
Article
Ecology
Ronghui Fan, Keyi Tang, Liang Dou, Changkun Fu, Abu ul Hassan Faiz, Xuming Wang, Yufan Wang, Shunde Chen, Shaoying Liu
Summary: In this study, the phylogenetic relationship of the elegant water shrew, Nectogale elegans, was inferred using sequencing of mitochondrial and nuclear genes. The results revealed two species within the genus Nectogale: N. elegans and N. sikhimensis. The split between these two species may be related to the uplift of the Qinghai-Tibet Plateau, which is supported by both molecular and morphological evidence.
ECOLOGY AND EVOLUTION
(2022)
Article
Biochemistry & Molecular Biology
E. R. Sandoval-Huerta, R. G. Beltran-Lopez, C. R. Pedraza-Marron, M. A. Paz-Velasquez, A. Angulo, D. R. Robertson, E. Espinoza, O. Dominguez-Dominguez
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2019)
Article
Biochemistry & Molecular Biology
Victor Julio Pineros, Rosa Gabriela Beltran-Lopez, Carole C. Baldwin, Enrique Barraza, Eduardo Espinoza, Juan Esteban Martinez, Omar Dominguez-Dominguez
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2019)
Article
Multidisciplinary Sciences
Nayarit E. Ballesteros-Nova, Rodolfo Perez-Rodriguez, Rosa G. Beltran-Lopez, Omar Dominguez-Dominguez
Article
Evolutionary Biology
Silvia Perea, Carla Sousa-Santos, Joana Robalo, Ignacio Doadrio
Article
Fisheries
Youness Mabrouki, Abdelkhaleq Fouzi Taybi, Jamila Bahhou, Ignacio Doadrio
JOURNAL OF APPLIED ICHTHYOLOGY
(2020)
Article
Fisheries
Rosa Gabriela Beltran-Lopez, Omar Dominguez-Dominguez, Kyle R. Piller, Humberto Mejia-Mojica, Adan Fernando Mar-Silva, Ignacio Doadrio
Summary: This study analyzes the genetic characteristics and phylogeographic relationships of Goodea, a widely distributed and environmentally tolerant genus of goodeids. The research reveals low genetic differentiation and shared haplotypes in some regions, as well as geographic segregation and isolated groups. Additionally, Bayesian Skyline Plot analysis indicates recent population expansion in certain regions for Goodea atripinnis.
JOURNAL OF FISH BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Rosa G. Beltran-Lopez, Alfonso A. Gonzalez-Diaz, Miriam Soria-Barreto, Marco Antonio Garduno-Sanchez, Carmela Xochitla-Castrejon, Rocio Rodiles-Hernandez, Claudia Patricia Ornelas-Garcia
Summary: The endangered Chiapas killifish Tlaloc hildebrandi is a geographically restricted freshwater species found in the Grijalva and Usumacinta basins. Genetic analysis revealed low genetic diversity and strong population structure, leading to the recognition of at least three evolutionarily significant units (ESUs) for the species. Urgent conservation efforts considering the genetic background of the species are needed to protect its fragmented populations living under unfavorable conditions.
Article
Multidisciplinary Sciences
Rosa G. Beltran-Lopez, Rodolfo Perez-Rodriguez, Ofelia C. Montanez-Garcia, Juan M. Artigas-Azas, Michael Koeck, Adan F. Mar-Silva, Omar Dominguez-Dominguez
Summary: The Goodeinae subfamily, consisting of fish species endemic to the Mexican highlands, includes the earliest diverging lineage Characodon, with the endangered species C. lateralis and C. audax. Through a phylogeographic study using mitochondrial genes, it was discovered that these species have significant genetic differentiation and at least four Evolutionarily Significant Units (ESUs), possibly formed through processes like isolation and strong sexual selection.
Article
Evolutionary Biology
Ana Berenice Garcia-Andrade, Rosa Gabriela Beltran-Lopez, Rodolfo Perez-Rodriguez, Omar Dominguez-Dominguez, Humberto Mejia-Mojica, Ignacio Doadrio
Summary: This study evaluated the evolutionary history of Aztec shiner in central Mexico, finding three genetically divergent lineages, with one widely distributed in different biogeographic regions dating back to the Pleistocene period. The results suggest that tecto-volcanic activity has shaped the geographic ranges, diversification, and phylogeographic patterns of freshwater fishes in the highlands of central Mexico.
JOURNAL OF ZOOLOGICAL SYSTEMATICS AND EVOLUTIONARY RESEARCH
(2021)
Article
Ecology
Andrea Corral-Lou, Silvia Perea, Anabel Perdices, Ignacio Doadrio
Summary: This study analyzed the population genetic structure of the endangered freshwater fish species Cobitis vettonica in the Iberian Peninsula and explored its relationship with its sister species Cobitis paludica. The results highlight the role of hydrogeomorphological processes and climatic changes in shaping the population structure of C. vettonica and its relationship with C. paludica. The study also identified the threat faced by C. vettonica populations due to low genetic diversity and genetic introgression with C. paludica.
ECOLOGY AND EVOLUTION
(2022)
Article
Multidisciplinary Sciences
Andrea Corral-Lou, Ignacio Doadrio
Summary: The study demonstrates that eDNA metabarcoding is a powerful tool for monitoring freshwater fish composition and uncovering cryptic diversity in the Iberian Peninsula. However, the need for a local genetic database for accurate interpretation and cautious use of mitochondrial DNA markers is highlighted.
Article
Biology
Keltoum Ouassal, Ignacio Doadrio, Silvia Perea, Miriam Casal-Lopez, Ahmed Yahyaoui, Hassane Jaziri
Summary: This study aims to provide genetic and biogeographic information of nine Luciobarbus species in Morocco. Sequencing of the cytochrome b gene revealed two evolutionary lineages in Morocco and different levels of genetic diversity within Luciobarbus populations.
Article
Limnology
Gael P. J. Denys, Silvia Perea, Agnes Dettai, Camille Gauliard, Henri Persat, Ignacio Doadrio
Summary: This study revalidates the status of Barbatula hispanica, providing genetic markers and discussing the taxonomy of B. quignardi. The species is characterized by specific features and its delineation is supported by molecular evidence.
ANNALES DE LIMNOLOGIE-INTERNATIONAL JOURNAL OF LIMNOLOGY
(2021)
