Article
Microbiology
Lina Liu, Yu Feng, Li Wei, Zhiyong Zong
Summary: Brevundimonas is a genus of Gram-negative bacteria widely distributed in nature, with the discovery of a novel species named Brevundimonas huaxiensis recovered from a cancer patient's blood culture. Analysis of Brevundimonas genomes revealed a need for correction in species assignation within the genus.
MICROBIOLOGY SPECTRUM
(2021)
Article
Microbiology
Gabriela Guerrera Soares, Emeline Boni Campanini, Roumayne Lopes Ferreira, Marcelo Silva Folhas Damas, Saulo Henrique Rodrigues, Leslie Camelo Campos, Jucimaria Dantas Galvao, Andrea Soares da Costa Fuentes, Caio Cesar de Melo Freire, Iran Malavazi, Andre Pitondo-Silva, Anderson Ferreira da Cunha, Maria-Cristina da Silva Pranchevicius
Summary: This study characterized an isolated Brevundimonas strain from the cerebrospinal fluid of a patient in a neonatal intensive care unit, identifying it as a new species, Brevundimonas brasiliensis sp. nov. The strain exhibited multidrug resistance and contained various antimicrobial resistance genes and virulence-associated genes. The findings provide insights into the genomic diversity, adaptation, evolution, and pathogenicity of multidrug-resistant Brevundimonas.
MICROBIOLOGY SPECTRUM
(2023)
Article
Evolutionary Biology
Lars Podsiadlowski, Kalle Tunstrom, Marianne Espeland, Christopher W. Wheat
Summary: Conservation genomics has made significant progress in the past decade, with a focus on vertebrate species but insects also playing a significant role as flagship species. The assembly of the Apollo butterfly genome is highly contiguous and provides an essential resource for advancing conservation genomics in insects. The Apollo butterfly genome is the largest sequenced Lepidopteran genome to date, with a high level of completeness and a large amount of annotated genes.
GENOME BIOLOGY AND EVOLUTION
(2021)
Article
Environmental Sciences
Ming Liu, Shanshan Ge, Shivish Bhandari, Chunlei Fan, Yu Jiao, Chunlei Gai, Youhong Wang, Hongjun Liu
Summary: The genomes of three economically important swimming crabs, Portunus trituberculatus, Charybdis japonica, and Callinectes sapidus, were sequenced and analyzed. The study revealed high heterozygosity and repeat content in the genomes. Comparative analysis showed that P. trituberculatus and C. japonica had higher genome similarity despite belonging to different subfamilies. This finding contradicts the phylogenetic relationship inferred from previous studies. The researchers speculated that the similarity might be due to their shared habitat and different evolutionary rates of coding DNA and non-coding DNA under environmental selection.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Biodiversity Conservation
Javiera Soto, Trevor C. Charles, Michael D. J. Lynch, Giovanni Larama, Hector Herrera, Cesar Arriagada
Summary: A novel strain of Brevundimonas sp. capable of growing under high doses of arsenic was isolated from metal(loid) contaminated soil in central Chile. Real-time PCR analysis revealed down-regulation of the arsB gene involved in arsenic efflux, while arsR, arsH, and ACR3 genes showed no significant differences in expression levels with the addition of arsenic.
Article
Plant Sciences
Modhumita Ghosh Dasgupta, Shanmugavel Senthilkumar, Eswaran Muthulakshmi, Aiyar Balasubramanian
Summary: In this study, a draft genome of Pterocarpus santalinus with a size of 541 Mb was assembled and evidence of whole-genome duplication during the Eocene period was discovered, along with an expansion of drought responsive gene families.
Article
Biodiversity Conservation
Matthew R. Jones, Daniel E. Winkler, Rob Massatti
Summary: The study found that in a small desert region in southeast Utah, demographic and ecological mechanisms promote diversification, endemism, and rarity in the threatened Astragalus species complex. High-throughput DNA sequencing revealed the impacts of demographic history, geographical and ecological distances on genetic differentiation, and identified potential adaptive loci.
DIVERSITY AND DISTRIBUTIONS
(2021)
Article
Multidisciplinary Sciences
Hemant Singh, Amira Sharief, Bheem Dutt Joshi, Vineet Kumar, Tanoy Mukherjee, Kailash Chandra, Nitin Bhardwaj, Mukesh Thakur, Lalit Kumar Sharma
Summary: This study assessed the coexistence and interspecific interactions of three ungulate species in the Indian Himalayan region. The results showed that species occupancy probabilities were influenced by environmental variables and the presence of other interacting species. Evidence of interspecific interaction among species pairs was found.
SCIENTIFIC REPORTS
(2022)
Article
Plant Sciences
Yu-Long Yu, Hui-Chun Wang, Zhi-Xiang Yu, Johann Schinnerl, Rong Tang, Yu-Peng Geng, Gao Chen
Summary: The study investigated the genetic diversity and structure of the endangered plant species Aristolochia delavayi in China. Analysis revealed high genetic diversity within populations but significant genetic differentiation among populations, possibly due to geographical barriers and limited seed dispersal. Conservation efforts should focus on maintaining genetic diversity and managing populations based on genetic clusters.
Article
Biochemistry & Molecular Biology
Lionel N. Di Santo, Sean Hoban, Thomas L. Parchman, Jessica W. Wright, Jill A. Hamilton
Summary: Understanding the contribution of neutral and adaptive evolutionary processes to population differentiation is important for the conservation of rare species. In this study, we used reduced representation sequencing to analyze the genetic differentiation and evolutionary processes of Torrey pine populations. We found low genetic diversity but potential adaptive differentiation. Therefore, the use of genetic rescue as a conservation strategy needs to consider the trade-offs.
Article
Microbiology
Myeong-Hyeon Min, Dong-Hyun Jung, Jin Nam Kim, Jaewoong Yu, Ahhyeon Choi
Summary: The complete genome sequence of strain NIBR10 was determined using PacBio RS II sequencing platform. The genome is 4,006,378-bp long with a G+C content of 66.89% and contains approximately 3,832 coding sequences. The genomic data will be valuable for research in natural taxonomy and comparative genomics of the genus Brevundimonas.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2023)
Article
Plant Sciences
Danilo Trabuco Amaral, Juliana Rodrigues Bombonato, Sonia Cristina da Silva Andrade, Evandro Marsola Moraes, Fernando Faria Franco
Summary: This study provides insights into the nuclear and plastid genomic features of South American cacti through comparative genomic analyses, focusing on the representative species Cereus fernambucensis. The analysis revealed significant differences in genome features among different cactus species, with C. fernambucensis having the largest genome size.
Article
Plant Sciences
Spela Pungarsek, Jasna Dolenc Koce, Martina Bacic, Michael H. J. Barfuss, Peter Schoenswetter, Bozo Frajman
Summary: This study examined the relationships among different species of Luzula sect. Luzula in the Eastern Alps using relative genome size and karyotype estimations, as well as AFLP fingerprinting. The study found the co-occurrence of multiple ploidies and species at the same localities, with partial fragmentation of chromosomes leading to the recurrent formation of agmatoploid individuals. Further research is needed to determine if this pattern is common in Luzula sect. Luzula and if ecological niche segregation supports the frequent co-occurrence of closely related cytotypes in mixed populations.
Article
Biochemistry & Molecular Biology
Jana Wold, Klaus-Peter Koepfli, Stephanie J. Galla, David Eccles, Carolyn J. Hogg, Marissa F. Le Lec, Joseph Guhlin, Anna W. Santure, Tammy E. Steeves
Summary: Structural variants (SVs) are large rearrangements within the genome that impact gene function, and their study offers conservation genomics an exciting opportunity to enhance species recovery by complementing traditional approaches. Despite their potential influence on fitness traits, SVs remain understudied in conservation genomics.
Article
Ecology
Ce Shang, Enze Li, Zhucheng Yu, Mengjia Lian, Zhuo Chen, Kangjia Liu, Linli Xu, Zhe Tong, Meifang Wang, Wenpan Dong
Summary: In this study, the whole chloroplast genomes of 12 genotypes of Bretschneidera sinensis were assembled, revealing significant genetic variation and diversity in the species. The chloroplast genome of B. sinensis exhibited a high level of genetic diversity, forming two distinct clades (Eastern and Western clades) based on the geographical distribution.
FRONTIERS IN ECOLOGY AND EVOLUTION
(2022)