Editorial Material
Biochemistry & Molecular Biology
Yameng Liang, Feng Tian
Summary: A new study has found that natural variation in the E1La gene contributed to the adaptation of wild soybeans to high latitude regions. This lost early-flowering allele can potentially be reintroduced into cultivated soybeans to develop early-maturing cultivars.
Article
Energy & Fuels
Deepthi Hebbale, Ravi Shankar Mishra, T. V. Ramachandra
Summary: The study demonstrates the potential of macroalgal biomass for bioethanol production and identifies Meyerozyma caribbica and Pichia kudriavzevii as promising yeast strains for ethanol production due to their high fermentation efficiency and tolerance to different conditions.
BIOENERGY RESEARCH
(2022)
Article
Zoology
Xing Guo, Xin-Xin He, Hong Chen, Zhi-Cheng Wang, Hui-Fang Li, Jiang-Xian Wang, Ming-Shan Wang, Run-Shen Jiang
Summary: Although mallards and Chinese spot-billed ducks have been proposed as potential wild ancestors of domestic ducks, a study analyzing 118 whole genomes suggests that domestic ducks may have originated from a different, currently unspecified wild duck population. Additionally, the study reveals pervasive introgression patterns among duck populations, and shows that domestic ducks separated from mallard and Chinese spot-billed ducks much earlier than previously thought, challenging the existing theories of duck domestication.
ZOOLOGICAL RESEARCH
(2021)
Article
Evolutionary Biology
Anne Friedrich, Jean-Sebastien Gounot, Andreas Tsouris, Claudine Bleykasten, Kelle Freel, Claudia Caradec, Joseph Schacherer
Summary: This study explores the genome evolution of Kluyveromyces lactis, a yeast species involved in dairy processes. The results show that the genetic diversity of this species is high, but the domesticated dairy population has reduced diversity due to a bottleneck effect. The study also identifies genes related to lactose fermentation and adaptation to dairy environments. Overall, the study highlights the contrasting genomic evolution in this yeast species and its impact on domestication processes.
GENOME BIOLOGY AND EVOLUTION
(2023)
Article
Microbiology
Riikka Linnakoski, Tuula Jyske, Ronja Eerikainen, Pyry Veteli, Marta Cortina-Escribano, Frederico Magalhaes, Eila Jarvenpaa, Lotta Heikkila, Mathias Hutzler, Brian Gibson
Summary: The demand for low- or non-alcoholic beers has been increasing, leading to research on non-Saccharomyces species that can consume simple sugars in wort and have limited alcohol production. In this project, new species and strains of non-conventional yeasts were collected from Finnish forests, and Mrakia gelida strains were selected for fermentation tests. The strains were able to produce beer with 0.7% alcohol, similar to the control strain. One promising M. gelida strain was chosen for pilot-scale fermentation, resulting in beers with 0.6% ABV and desirable fruit notes. The strains showed low risk to process hygiene and occupational safety.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Multidisciplinary Sciences
Soma Tomihara, Yoshitaka Oka, Shinji Kanda
Summary: Behavioral analysis plays a crucial role in biological studies, but manual behavioral recordings are laborious and prone to human-errors. By establishing an open-source behavioral recording system using Raspberry Pi, automated video-recording and file-sorting are achieved, reducing human errors significantly. Additionally, with the development of an Excel macro, behavioral annotation becomes easier and more efficient.
SCIENTIFIC REPORTS
(2021)
Article
Microbiology
Ruba A. Ashy, Rewaa S. Jalal, Hana S. Sonbol, Mashael D. Alqahtani, Fatmah O. Sefrji, Sahar A. Alshareef, Fatimah M. Alshehrei, Haneen W. Abuauf, Lina Baz, Manal A. Tashkandi, Israa J. Hakeem, Mohammed Y. Refai, Aala A. Abulfaraj
Summary: The study aimed to investigate the genes encoding CAZymes and other KEGG enzymes in the phageome of soil rhizosphere of M. oleifera. The abundance of these genes was higher in the rhizospheric microbiome than in the bulk soil. Detected viral families include Potyviridae and Caudoviricetes, which are mainly associated with bacterial genera Pseudomonas, Streptomyces, and Mycobacterium.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Plant Sciences
Xitlali Aguirre-Dugua, Josue Barrera-Redondo, Jaime Gasca-Pineda, Alejandra Vazquez-Lobo, Andrea Lopez-Camacho, Guillermo de la Vega, Gabriela Castellanos-Morales, Enrique Scheinvar, Erika Aguirre-Planter, Rafael Lira-Saade, Luis Eguiarte
Summary: Cucurbita ficifolia, a squash grown in Mexico to Bolivia, exhibits high genetic diversity and inbreeding. Despite the ecological proximity with its relatives, the origin of this crop remains puzzling.
Article
Microbiology
Shuan Tao, Dongdong Zhou, Huimin Chen, Na Li, Lin Zheng, Yewei Fang, Yao Xu, Qi Jiang, Wei Liang
Summary: This study analyzed the gene structure and function of the CRISPR system in the Enterococcus genome, particularly in relation to drug resistance. Bioinformatics methods were used to analyze the genome information of 110 enterococci and identify the distribution and structure of the CRISPR-Cas system. It was found that the presence of CRISPR loci reduces the horizontal transfer of some drug resistance genes.
FRONTIERS IN MICROBIOLOGY
(2023)
Review
Plant Sciences
Mohammad Pourkheirandish, Takao Komatsuda
Summary: Crop wild relatives are important sources of genetic variation and crop diversification, but a more detailed understanding of the differences between wild and cultivated species is needed. Instead of introgression, domesticating wild relatives to generate new crops has been proposed, but there are knowledge gaps on the molecular mechanisms and genomic consequences of grain retention/disarticulation in cereals.
PLANT AND CELL PHYSIOLOGY
(2022)
Article
Infectious Diseases
Iman Haghani, Zahra Yahyazadeh, Mohammad Taghi Hedayati, Tahereh Shokohi, Hamid Badali, Shaghayegh Khojasteh, Javad Akhtari, Javad Javidnia, Maryam Moazeni, Ahmed Al-Harrasi, Seyed Reza Aghili, Firoozeh Kermani, Zohreh Hajheydari, Abdullah M. S. Al Hatmil, Mahdi Abastabar
Summary: The aim of this study was to determine the in-vitro activity of miltefosine against Aspergillus strains. Miltefosine was found to be effective against azole-resistant Aspergillus isolates, with minimum inhibitory concentrations ranging from 1.562 to 6.25 μg/mL. Miltefosine had a higher geometric mean MIC for wild-type Aspergillus isolates compared to itraconazole and voriconazole.
INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS
(2023)
Review
Agriculture, Dairy & Animal Science
Nerissa Russell
Summary: This article discusses the cognitive distinction between wild and domestic animals among the inhabitants of Neolithic Near East, examining how this affected economic choices and ritual activities through analysis of animal imagery and remains.
Review
Microbiology
Pascal Arne, Veronica Risco-Castillo, Gregory Jouvion, Cecile Le Barzic, Jacques Guillot
Summary: Fungi of the genus Aspergillus can thrive in various environments and pose a serious threat to birds. The importance of innate immunity and exposure level varies in the development of Aspergillosis among avian species and epidemiological situations. Due to the low efficacy of treatments, understanding the conditions favoring the emergence of Aspergillosis is crucial for prevention.
Article
Multidisciplinary Sciences
Miguel Morard, Laura Perez-Traves, Carla Perpina, Maria Lairon-Peris, Maria Carmen Collado, Roberto Perez-Torrado, Amparo Querol
Summary: S.cerevisiae strains from food products, such as bread and probiotic supplements, can cause infections and undergo important phenotypic and genomic changes for host adaptation, serving as markers to determine the source of infection.
SCIENTIFIC REPORTS
(2023)
Article
Biology
Eduardo I. Kessi-Perez, Eric Acuna, Camila Bastias, Leyanis Fundora, Manuel Villalobos-Cid, Andres Romero, Sakshi Khaiwal, Matteo De Chiara, Gianni Liti, Francisco Salinas, Claudio Martinez
Summary: For over 20 years, Saccharomyces cerevisiae has been a model organism for genetic and molecular biology studies, as well as a platform for biotechnology. This study focused on the yeast's adaptation to nitrogen limitation in the context of wine fermentation, using the 1002 Yeast Genomes Project population. Results showed that wild and domesticated yeast strains have different adaptations to nitrogen limitation, and specific genes such as PNP1, RRT5, and PDR12 are involved in wine fermentation and yeast's nitrogen limitation adaptation. The identified genetic variants have potential applications for genetically improving industrial yeast strains.
BIOLOGICAL RESEARCH
(2023)
Review
Plant Sciences
Fanny E. Hartmann, Marine Duhamel, Fantin Carpentier, Michael E. Hood, Marie Foulongne-Oriol, Philippe Silar, Fabienne Malagnac, Pierre Grognet, Tatiana Giraud
Summary: Genomic regions determining sexual compatibility often display recombination suppression, which can extend beyond the genes determining sexes or mating types, maintaining the multiallelic combinations required for correct compatibility determination. Recent evidence shows expansions of recombination suppression beyond mating-type genes in fungi, which have been little studied and may be more pervasive than commonly thought. The study of recombination suppression in fungi could contribute to our understanding of recombination suppression expansion across a broader range of organisms.
Article
Food Science & Technology
Francky Steve Nodem Sohanang, Monika Coton, Stella Debaets, Emmanuel Coton, Leopold Ngoune Tatsadjieu, Bouba Adji Mohammadou
Summary: The study evaluated bacterial diversity and safety characteristics of LAB strains in traditional Cameroonian fermented milks. The dominant microbial species included LAB, fungi, and total viable bacteria, with some LAB strains showing high tolerances to acidity and bile salts. Identified species included Pediococcus acidilactici, Lactobacillus fermentum, and Lactobacillus plantarum, with some strains exhibiting interesting antifungal activities.
LWT-FOOD SCIENCE AND TECHNOLOGY
(2021)
Article
Ecology
Roger K. Butlin, Maria R. Servedio, Carole M. Smadja, Claudia Bank, Nicholas H. Barton, Samuel M. Flaxman, Tatiana Giraud, Robin Hopkins, Erica L. Larson, Martine E. Maan, Joana Meier, Richard Merrill, Mohamed A. F. Noor, Daniel Ortiz-Barrientos, Anna Qvarnstrom
Summary: Felsenstein introduced a model in 1981 to explore the role of genetic constraints in speciation. He described the process of speciation through the accumulation of linkage disequilibrium, showing that recombination inhibits speciation. These insights have laid the foundation for empirical and theoretical studies of speciation.
Article
Food Science & Technology
Marine Penland, Jerome Mounier, Audrey Pawtowski, Sylvie Treguer, Stephanie-Marie Deutsch, Monika Coton
Summary: This study investigated the influence of process environment and raw materials on microbial diversity during Nyons black table olive fermentations. Results showed significant differences in bacterial composition between control and spoiled fermentations, with higher diversity in the latter, especially for lactic acid bacteria. Fungal communities were similar, but process environment samples had higher diversity compared to fresh olive fruits. SourceTracker analysis highlighted the contribution of brine and water from the optical sorter as sources of fungi.
FOOD RESEARCH INTERNATIONAL
(2021)
Article
Food Science & Technology
Oceane Savary, Jerome Mounier, Anne Thierry, Elisabeth Poirier, Julie Jourdren, Marie-Bernadette Maillard, Marine Penland, Christophe Decamps, Emmanuel Coton, Monika Coton
Summary: A tailor-made microbial consortium representative of the core Kombucha microbiota was successfully used to drive the fermentation process. Organic acids such as acetic, lactic, succinic, and oxalic acids were produced, along with a gradual increase in gluconic and glucuronic acids during fermentation. The volatile profile also shifted throughout the fermentation process, with a variety of compounds identified at different stages.
FOOD RESEARCH INTERNATIONAL
(2021)
Review
Mycology
Vincent Visconti, Emmanuel Coton, Karim Rigalma, Philippe Dantigny
Summary: Molds can contaminate various surfaces through airborne conidia and spores, requiring the use of disinfectants to control their growth. In the food industry, different fungal species show varying levels of resistance to disinfection procedures.
FUNGAL BIOLOGY REVIEWS
(2021)
Article
Ecology
Marine Duhamel, Fantin Carpentier, Dominik Begerow, Michael E. Hood, Ricardo C. Rodriguez de la Vega, Tatiana Giraud
Summary: Researchers found that recombination suppression between mating-type chromosomes occurred in multiple steps and at least nine independent events linked the mating-type loci together in Microbotryum fungi. Chromosomal rearrangements and recombination suppression are evolutionary mechanisms leading to phenotypic convergence.
JOURNAL OF EVOLUTIONARY BIOLOGY
(2022)
Review
Food Science & Technology
Marco Cardin, Barbara Cardazzo, Jerome Mounier, Enrico Novelli, Monika Coton, Emmanuel Coton
Summary: Food fraud, intentional actions to deceive purchasers and gain economic advantage, results in billions of dollars of economic cost globally each year. Cheese, especially those with protected labels, is highly impacted as consumers are willing to pay more for traditional products. Various authentication methods, including chemical, physical, and DNA-based methods, are being used for cheese origin authentication. Isotope and elemental fingerprinting show consistent accuracy, while other methods like near-infrared spectroscopy and nuclear magnetic resonance need further study. DNA-based methods, such as metabarcoding, show potential. Combining different methods and studying cheese microbiota at the strain level can also be of interest in this field.
Review
Microbiology
Jeanne Ropars, Tatiana Giraud
Summary: This article reviews the phenomenon of phenotypic convergence during the domestication of fungi, focusing on several fungi involved in cheese making and dry-cured meat making. Adaptation to similar ecological niches led to convergence in aspects such as colony aspect, metabolism, and competitive ability.
CURRENT OPINION IN MICROBIOLOGY
(2022)
Article
Food Science & Technology
Oceance Savary, Emmanuel Coton, Marie-Bernadette Maillard, Frederic Gaucheron, Christophe Le Meur, Jens Frisvad, Anne Thierry, Jean-Luc Jany, Monika Coton
Summary: This study aimed to evaluate the functional impact of Bisifusarium domesticum and other cheese-associated fungi on cheese-making. Their lipolytic and proteolytic activities, as well as their potential to produce volatile and non-volatile secondary metabolites, were assessed. Four novel cheese-associated species, including Bisifusarium allantoides, Bisifusarium penicilloides, Longinectria lagenoides, and Long-inectria verticilliformis, were described, and these species showed potential in lipid production.
FOOD RESEARCH INTERNATIONAL
(2023)
Editorial Material
Biochemistry & Molecular Biology
Tatiana Giraud, Jeanne Ropars, Eva H. H. Stukenbrock, Katherine Ryan Amato, Ricardo Rodriguez de la Vega
Article
Biodiversity Conservation
Aurelie Philippe, Cyril Noel, Boris Eyheraguibel, Jean-Francois Briand, Ika Paul-Pont, Jean-Francois Ghiglione, Emmanuel Coton, Gaetan Burgaud
Summary: Plastics have a negative impact on both terrestrial and aquatic ecosystems, with global environmental pollution. This study focuses on the fungal communities associated with plastic debris in marine environments, and highlights that these communities are different from those in surrounding seawater. The fungal colonization is influenced by sampling locations and the nature of plastics, with significant differences between conventional and biodegradable polymers. This study strengthens the understanding that the fungal kingdom is an integral part of the plastisphere.
Article
Evolutionary Biology
Ewen Crequer, Jeanne Ropars, Jean-Luc Jany, Thibault Caron, Monika Coton, Alodie Snirc, Jean-Philippe Vernadet, Antoine Branca, Tatiana Giraud, Emmanuel Coton
Summary: This study identified a new population of Penicillium roqueforti specifically found in French Termignon cheeses, which provides a novel source of genetic diversity for cheese making. Additionally, two non-cheese populations that adapt to different ecological niches have not been investigated yet. The results suggest that domestication and adaptation to anthropized environments have occurred in cheese fungi.
EVOLUTIONARY APPLICATIONS
(2023)