Article
Biochemistry & Molecular Biology
Oldrich Bartos, Jorg Bohlen, Vendula Bohlen Slechtova, Jan Koci, Jan Roslein, Karel Janko
Summary: As whole-genome sequencing becomes popular, some argue that reduced genomic representation approaches like sequence capture are becoming obsolete. However, this study argues that these techniques are still valuable due to their price, data quality, and ability to provide specific markers, especially in phylogenomics. The study highlights a gap in knowledge regarding the applicability of these techniques to interspecific hybrids and polyploids, which is important given the occurrence and significance of these phenomena in evolution. The main aim of the study is to validate the SEQcap technique for non-model taxa with varying phylogenetic relatedness and inter-specific hybrids with different ploidies and genomic compositions, specifically focusing on allelic bias and dropout.
MOLECULAR ECOLOGY RESOURCES
(2023)
Review
Cell Biology
Fatima Conceicao-Silva, Clarissa S. M. Reis, Paula Mello De Luca, Jessica Leite-Silva, Marta A. Santiago, Alexandre Morrot, Fernanda N. Morgado
Summary: The existence of extracellular traps (ETs) containing DNA was first described in neutrophils in 2004. Since then, ETs have been found in various cells involved in immune responses, impacting the development of infectious and non-infectious diseases. Studies show that different cells may have multiple mechanisms for ETs formation.
Article
Biotechnology & Applied Microbiology
Jingya Yu, Yun Han, Hao Xu, Shuang Han, Xiaoping Li, Yu Niu, Shilong Chen, Faqi Zhang
Summary: By sequencing and analyzing the plastid genomes of Ajania and combining them with ETS data, we have validated the early taxonomy reclassification and revealed the evolutionary rate heterogeneity and phylogenetic heterogeneity of plastid genes.
Article
Microbiology
Catarina Leticia Ferreira de Lima, Joana D'arc Alves Leitao Lundgren, Thuong Thuong Thi Nguyen, Thalline Rafhaella Leite Cordeiro, Diogo Xavier Lima, Luciana Melo Sartori Gurgel, Diogo Paes da Costa, Hyang Burm Lee, Andre Luiz Cabral Monteiro de Azevedo Santiago
Summary: Two new Backusella species were discovered and described in a survey of Mucorales from a forest in Pernambuco state, Brazil. The morphological and molecular data were used for the characterization, and an identification key for Backusella species in the Americas was provided.
Article
Biochemistry & Molecular Biology
Wen Song, Huixin Jiao, Juan Yang, Danxu Tang, Tingting Ye, Lu Li, Lei Yang, Lifang Li, Weibo Song, Saleh A. Al-Farraj, Hunter N. Hines, Weiwei Liu, Xiao Chen
Summary: This study provides an updated hypothesis for the evolutionary history of oligotrichs and choreotrichs based on new evidence obtained by expanding sampling of molecular information across multiple gene loci. The results reveal consistency between morphological taxonomy and an updated phylogenetic system for these two subclasses of marine planktonic ciliates.
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2023)
Review
Microbiology
Zhishuai Qu, Hongbo Pan, Jun Gong, Congcong Wang, Sabine Filker, Xiaozhong Hu
Summary: In this study, we review the taxonomy, phylogeny, and ecology of cyrtophorian ciliates in China, providing a comprehensive understanding of their classification and evolutionary history. We provide a species checklist, an illustrated identification key, and molecular data for the study of phylogeny. Our findings suggest that the separation of the stomatogenesis zone from the left kineties is a key evolutionary event in cyrtophorian ciliates, leading to the formation of an independent sexual organelle.
Article
Biochemistry & Molecular Biology
Magdalena Senderowicz, Teresa Nowak, Hanna Weiss-Schneeweiss, Laszlo Papp, Bozena Kolano
Summary: This study investigated the chromosome evolution of Crepis plants by analyzing the chromosome base number and organization of rDNA loci in 39 species. The results showed that despite variations in rDNA loci organization, most species had rDNA loci on the same chromosome arm. Comparative analysis revealed multiple independent gains of rDNA loci and repositioning during diversification and speciation. These findings provide important insights into the evolutionary mechanisms and speciation of Crepis plants.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Mingzhen Ma, Yuqing Li, Xyrus X. Maurer-Alcala, Yurui Wang, Ying Yan
Summary: This study revealed the phylogenetic relationships within Karyorelictea by analyzing multiple genes and established a new taxonomic unit at the order level. The results also revealed common features and evolutionary history among different species.
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2022)
Article
Agronomy
Shahrbanou Bakhshi Amrei, Vlada Peneva, Farshad Rakhshandehroo, Majid Pedram
Summary: The new species of the nematode suborder Longidorus, Longidorus armeniacae n. sp., was characterized and illustrated based on morphological and molecular data. The new species was found in the rhizosphere of apricot trees in northeast Iran. The study discusses the morphological differences between the new species and other closely related species, and reconstructs the phylogenetic relationships among the selected species of the genus using LSU D2-D3 and ITS rDNA sequences.
EUROPEAN JOURNAL OF PLANT PATHOLOGY
(2022)
Article
Agronomy
A. A. Gnutikov, N. N. Nosov, I. G. Loskutov, E. M. Machs, E. Blinova, N. S. Probatova, T. Langdon, A. Rodionov
Summary: The study clarified the origin of diploid C-genome oat Avena bruhnsiana from Azerbaijan, its relationship with A. ventricosa and A. clauda, as well as revealed the rDNA sources of A. bruhnsiana and its relationship with other species.
Article
Ecology
Daniel Fernandez Marchan, Alejandro Martinez Navarro, Sergio Jimenez Pinadero, Sylvain Gerard, Mickael Hedde, Jorge Dominguez, Thibaud Decaen, Marta Novo
Summary: This study used molecular phylogenetics to identify and reclassify species in the genus Aporrectodea. The results indicate that Ap. giardi voconca and Ap. longa ripicola are species-level entities not closely related to Ap. giardi or Ap. longa, and thus have been redescribed. Ancestral area reconstruction revealed that Aporrectodea originated in the Auvergne-Rhone-Alps region in Southeastern France. The study also provided insights into the evolution of functional traits in this genus.
EUROPEAN JOURNAL OF SOIL BIOLOGY
(2023)
Review
Biotechnology & Applied Microbiology
Matthew J. Winans
Summary: Microbiology plays a crucial role in fermentation, and yeast molecular biotechnology is an important field in brewing science. Over the past few decades, our understanding of brewer's yeast has significantly improved. This publication provides a condensed overview of the dynamics of Saccharomyces species, with a focus on traditional ale yeast Saccharomyces cerevisiae, interspecific hybrids used in lager production, and novel hybrid yeast progress. It also briefly discusses introgression from other Saccharomyces species. Recent genomic sequencing studies have revealed the unique history of Saccharomyces cerevisiae and its hybrids, leading to the redefinition of species boundaries. Phylogenetic investigations have highlighted the genomic diversity of ale strains and the contribution of interspecific hybrids to the genome of Saccharomyces cerevisiae strains.
FERMENTATION-BASEL
(2022)
Article
Plant Sciences
M. Laura Las Penas, Gabriel Bernardello
Summary: Pterocactus comprises 10 species endemic to specific areas in South America. Through analysis of phylogenetic relationships, it was found that Pterocactus is monophyletic, with two lineages identified. The split of Pterocactus from its sister group was estimated to be 9.38 million years ago, with a crown group age of 7.69 million years. The diversity in chromosome numbers and genome size demonstrates the importance of polyploidy in the evolution of Pterocactus.
Article
Parasitology
R. Pena-Santiago, J. Abolafia, M. Hosseinvand, A. Eskandari
Summary: The evolutionary relationships of the nematode genus Loofilaimus are investigated using both morphological and molecular data. Fresh specimens of the species allowed for SEM observations and sequencing for the first time, providing valuable insights into its phylogeny. The molecular study revealed its restricted evolutionary trend within Dorylaimida, and the acceptance of Loofilaimidae as a separate family.
JOURNAL OF HELMINTHOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Jacob S. Suissa, Sylvia P. Kinosian, Peter W. Schafran, Jay F. Bolin, W. Carl Taylor, Elizabeth A. Zimmer
Summary: The study utilizes various molecular techniques to reveal the significant role of hybridization and high polyploidy in lycophytes. It shows that hybridization is easily achieved between different species, with bidirectional crosses occurring between identical cytotypes. Fertile allopolyploids may have formed repeatedly from sterile homoploid and interploid hybrids.
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2022)
Article
Plant Sciences
Stein Servick, Clayton J. Visger, Matthew A. Gitzendanner, Pamela S. Soltis, Douglas E. Soltis
AMERICAN JOURNAL OF BOTANY
(2015)
Article
Biochemistry & Molecular Biology
Andre S. Chanderbali, Fengmei He, Pamela S. Soltis, Douglas E. Soltis
MOLECULAR BIOLOGY AND EVOLUTION
(2015)
Article
Biochemistry & Molecular Biology
Jia-bin Deng, Bryan T. Drew, Evgeny V. Mavrodiev, Matthew A. Gitzendanner, Pamela S. Soltis, Douglas E. Soltis
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2015)
Article
Biochemistry & Molecular Biology
Miao Sun, Douglas E. Soltis, Pamela S. Soltis, Xinyu Zhu, J. Gordon Burleigh, Zhiduan Chen
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2015)
Article
Biochemistry & Molecular Biology
Shuang Tian, Shu-Qing Lei, Wan Hu, Ling-Li Deng, Bo Li, Qing-Lin Meng, Douglas E. Soltis, Pamela S. Soltis, Deng-Mei Fan, Zhi-Yong Zhang
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2015)
Correction
Multidisciplinary Sciences
Amy E. Zanne, David C. Tank, William K. Cornwell, Jonathan M. Eastman, Stephen A. Smith, Richard G. FitzJohn, Daniel J. McGlinn, Brian C. O'Meara, Angela T. Moles, Peter B. Reich, Dana L. Royer, Douglas E. Soltis, Peter F. Stevens, Mark Westoby, Ian J. Wright, Lonnie Aarssen, Robert I. Bertin, Andre Calaminus, Rafael Govaerts, Frank Hemmings, Michelle R. Leishman, Jacek Oleksyn, Pamela S. Soltis, Nathan G. Swenson, Laura Warman, Jeremy M. Beaulieu
Letter
Multidisciplinary Sciences
Amy E. Zanne, David C. Tank, William K. Cornwell, Jonathan M. Eastman, Stephen A. Smith, Richard G. FitzJohn, Daniel J. McGlinn, Brian C. O'Meara, Angela T. Moles, Peter B. Reich, Dana L. Royer, Douglas E. Soltis, Peter F. Stevens, Mark Westoby, Ian J. Wright, Lonnie Aarssen, Robert I. Bertin, Andre Calaminus, Rafael Govaerts, Frank Hemmings, Michelle R. Leishman, Jacek Oleksyn, Pamela S. Soltis, Nathan G. Swenson, Laura Warman, Jeremy M. Beaulieu
Article
Plant Sciences
Evgeny V. Mavrodiev, Michael Chester, Victor N. Suarez-Santiago, Clayton J. Visger, Roseana Rodriguez, Alfonso Susanna, Riccardo M. Baldini, Pamela S. Soltis, Douglas E. Soltis
Article
Plant Sciences
David C. Tank, Jonathan M. Eastman, Matthew W. Pennell, Pamela S. Soltis, Douglas E. Soltis, Cody E. Hinchliff, Joseph W. Brown, Emily B. Sessa, Luke J. Harmon
Article
Plant Sciences
Jacob B. Landis, Kayla L. Ventura, Douglas E. Soltis, Pamela S. Soltis, David G. Oppenheimer
APPLICATIONS IN PLANT SCIENCES
(2015)
Article
Plant Sciences
Srikar Chamala, Nicolas Garcia, Grant T. Godden, Vivek Krishnakumar, Ingrid E. Jordon-Thaden, Riet De Smet, W. Brad Barbazuk, Douglas E. Soltis, Pamela S. Soltis
APPLICATIONS IN PLANT SCIENCES
(2015)
Article
Plant Sciences
Lucas C. Majure, Walter S. Judd, Fabian A. Michelangeli
Article
Ecology
E. Dobesova, H. Malinska, R. Matyasek, A. R. Leitch, D. E. Soltis, P. S. Soltis, A. Kovarik
Article
Ecology
M. Chester, R. K. Riley, P. S. Soltis, D. E. Soltis
Article
Forestry
John M. Davis, Pamela S. Soltis, Damian C. Adams, Sherry L. Larkin, Robert A. Gilbert