Article
Biochemistry & Molecular Biology
Daniel Vaulot, Stefan Geisen, Frederic Mahe, David Bass
Summary: Metabarcoding of microbial eukaryotes has greatly advanced in the past decade, with the development of a database listing 285 primers and 83 unique primer pairs used for eukaryotic 18S rRNA gene metabarcoding. An R-based web application has been developed to assist researchers in making informed primer choices and including protists in their investigations.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Environmental Sciences
Thuy Tram Nguyen, Thi Trang Le, Huy Hoang Le, Thi Nga Tang, Thi Thu Hang Phung, Thi Mai Hien Vu, Thi Hai Au Tran, Dong Tu Nguyen, Thi Phuong Lien Nguyen, Duc Phuc Pham, Panagiotis Karanis
Summary: This study aimed to investigate the presence of Cryptosporidium and Giardia in environmental samples and fecal samples of biogas users in Bac Giang province, Vietnam. The results showed that a small percentage of samples tested positive for Cryptosporidium oocysts and Giardia cysts. The presence of certain genotypes and assemblages of these protozoa were identified, including some that were previously unknown in humans in Bac Giang.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Marine & Freshwater Biology
Xiaotian Luo, Jie Huang, Honggang Ma, Yujie Liu, Xiaoteng Lu, William A. Bourland
Summary: In contrast to most hypotrich ciliates that inhabit the benthos, only a few species of the genus Hypotrichidium have adapted to a planktonic lifestyle. This study investigates the interphase morphology and ontogenetic process of Hypotrichidium tisiae, redefining its ciliary pattern. The morphogenetic features and phylogenetic analyses support the assignment of Hypotrichidium to the family Spirofilidae within Postoralida, as well as the establishment of separate families for slender tubicolous spirofilids and highly helical spirofilids.
MARINE LIFE SCIENCE & TECHNOLOGY
(2022)
Article
Zoology
Wenxin Xu, Jiyang Ma, Yuan Li, William A. Bourland, Giulio Petroni, Xiaotian Luo, Weibo Song
Summary: This study investigates a new hypotrich ciliate species from a freshwater fishpond based on morphological, morphogenetic, and molecular data. The phylogenetic analyses reveal a close relationship between the new species and Simplicitergida, leading to the proposal of a new family, Clampidae fam. nov.
ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY
(2022)
Article
Biochemistry & Molecular Biology
Guangying Wang, Su Wang, Xiaocui Chai, Jing Zhang, Wentao Yang, Chuanqi Jiang, Kai Chen, Wei Miao, Jie Xiong
Summary: By utilizing third-generation sequencing technologies, researchers have developed a simple strategy to assemble the complete MAC genome of ciliates, achieving telomere-to-telomere assembly of the MAC genomes in two ciliate species. This established strategy and high-quality genome data will serve as valuable resources for further biological, evolutionary, and population genomic studies.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2021)
Article
Marine & Freshwater Biology
Wenya Song, Xiaotian Luo, Yong Chi, Saleh A. Al-Farraj, Chen Shao
Summary: Ciliates play important roles in ecological, environmental, evolutionary, and ontogenetic research. This study identifies the phylogenetic position of Chaetospira sinica sp. nov. and provides morphological and morphogenetic data to support its validity. Additionally, the morphologic and molecular data of exconjugant cells are provided.
MARINE LIFE SCIENCE & TECHNOLOGY
(2022)
Article
Environmental Sciences
R. G. Bulgarelli, M. F. A. Leite, M. De Hollander, P. Mazzafera, S. A. L. Andrade, E. E. Kuramae
Summary: The availability of soil phosphorus can affect plant growth, root-soil interactions, and rhizosphere microbial community composition. This study investigated the rhizosphere microbial communities of 24 species of eucalypts under low or sufficient soil phosphorus availability. It was found that eucalypt species identity was the main factor determining the composition of the rhizosphere microbial community, while the effect of phosphorus availability varied among species.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Plant Sciences
Micaela Tosi, Cameron M. Ogilvie, Federico N. Spagnoletti, Sarah Fournier, Ralph C. Martin, Kari E. Dunfield
Summary: Cover crops improve soil health and water supply for cash crops, but their effects on plant-associated microbial communities, including AMF, are unclear.
Article
Infectious Diseases
Simon Hosbond Poulsen, Kirstine Kobberoe Sogaard, Kurt Fuursted, Hans Linde Nielsen
Summary: This study retrospectively evaluated the diagnostic accuracy and clinical utility of 16S/18S tNGS in the routine clinical setting. The results showed that tNGS had a certain sensitivity and specificity for detecting pathogenic microorganisms and could detect a greater variety of bacteria and fungi. However, the long turnaround time of tNGS and limited impact on clinical management were observed.
INFECTIOUS DISEASES
(2023)
Article
Biodiversity Conservation
Anais Chanson, Corrie S. Moreau, Christophe Duplais
Summary: This study examines the impact of host ecology and evolutionary history on the microbial communities of Amazonian ants. The research shows that habitat does not play a role in structuring ant microbial communities, but ant diet and nesting mode do influence bacterial communities. Additionally, nesting mode is the determining factor for microbial eukaryote communities, while microbial diversity is not correlated with host phylogeny.
Article
Veterinary Sciences
Liheng Zhang, Xianghui Li, Xinghui Song, Chuanzhou Bian, Xiangtao Kang, Junqiang Zhao, Hongxing Qiao, Yanzhang Gong
Summary: Endophytic fungi are microorganisms that exist within healthy plant organs and have a significant influence on the production of metabolic products in plants. Fermentation with probiotic cultures can affect the diversity and abundance of endophytic fungi in Astragalus membranaceus. These findings provide a foundation for exploring the potential use of endophytic fungi from A. membranaceus as a source of functional compounds.
FRONTIERS IN VETERINARY SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Anastasija Zaiko, Paul Greenfield, Cathryn Abbott, Ulla von Ammon, Jaret Bilewitch, Michael Bunce, Melania E. Cristescu, Anthony Chariton, Eddy Dowle, Jonathan Geller, Alba Ardura Gutierrez, Mehrdad Hajibabaei, Emmet Haggard, Graeme J. Inglis, Shane D. Lavery, Aurelija Samuiloviene, Tiffany Simpson, Michael Stat, Sarah Stephenson, Judy Sutherland, Vibha Thakur, Kristen Westfall, Susanna A. Wood, Michael Wright, Guang Zhang, Xavier Pochon
Summary: Advances in high-throughput sequencing technology are changing marine monitoring by enabling rapid and accurate detection of species in complex samples. An international experiment showed that while there was variation in results from different laboratories, the primary signal in the data was consistent, with samples grouping by geographical origin. Post hoc data clean-up, such as removing low-quality samples, improved sample classification accuracy significantly.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Biochemistry & Molecular Biology
Wanying Liao, Pedro Henrique Campello-Nunes, Leandro Gammuto, Tiago Abreu Viana, Roberto de Oliveira Marchesini, Thiago da Silva Paiva, Inacio Domingos da Silva-Neto, Letizia Modeo, Giulio Petroni
Summary: The study characterizes the loricate peritrich Thuricola similis and its evolutionary position within Oligohymenophorea subclasses through mitogenome sequencing and phylogenomic analysis. It reveals the evolutionary relationships among Oligohymenophorea subclasses, with T. similis branching basally to other subclasses, and provides insights into the phylogeny of little-known ciliated species.
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2021)
Article
Microbiology
Peeter Laas, Kelly Ugarelli, Rafael Travieso, Sandro Stumpf, Evelyn E. Gaiser, John S. Kominoski, Ulrich Stingl
Summary: Planktonic microbial communities in wetland ecosystems play a vital role, yet they are relatively underexplored compared to other aquatic ecosystems. This study conducted a high-resolution analysis of bacterial and eukaryotic microbial communities in the Florida Everglades, revealing significant variations along the salinity gradient.
Article
Agriculture, Dairy & Animal Science
Fangyuan Yin, Chuanjiang Guo, Dong Li, Zhuojia Tian, Facai Li
Summary: The study investigated the prevalence and genetic characteristics of vector-borne pathogens in dogs in China, finding that Hepatozoon canis was the main pathogen identified. This information is crucial for developing effective control measures against canine vector-borne diseases.
Article
Agriculture, Dairy & Animal Science
Suzanne L. Ishaq, Chad M. Page, Carl J. Yeoman, Thomas W. Murphy, Megan L. Van Emon, Whit C. Stewart
JOURNAL OF ANIMAL SCIENCE
(2019)
Review
Agriculture, Dairy & Animal Science
J. F. Garcia-Mazcorro, S. L. Ishaq, M. Rodriguez-Herrera, C. A. Garcia-Hernandez, J. R. Kawas, T. G. Nagaraja
Article
Environmental Sciences
Patrick F. Horve, Savanna Lloyd, Gwynne A. Mhuireach, Leslie Dietz, Mark Fretz, Georgia MacCrone, Kevin Van den Wymelenberg, Suzanne L. Ishaq
JOURNAL OF EXPOSURE SCIENCE AND ENVIRONMENTAL EPIDEMIOLOGY
(2020)
Article
Ecology
Tim Seipel, Suzanne L. Ishaq, Fabian D. Menalled
BASIC AND APPLIED ECOLOGY
(2019)
Article
Biochemistry & Molecular Biology
Suzanne L. Ishaq, Maurisa Rapp, Risa Byerly, Loretta S. McClellan, Maya R. O'Boyle, Anika Nykanen, Patrick J. Fuller, Calvin Aas, Jude M. Stone, Sean Killpatrick, Manami M. Uptegrove, Alex Vischer, Hannah Wolf, Fiona Smallman, Houston Eymann, Simon Narode, Ellee Stapleton, Camille C. Cioffi, Hannah F. Tavalire
Article
Multidisciplinary Sciences
Samantha Velazquez, Chenyang Bi, Jeff Kline, Susie Nunez, Rich Corsi, Ying Xu, Suzanne L. Ishaq
Article
Soil Science
Suzanne L. Ishaq, Tim Seipel, Carl J. Yeoman, Fabian D. Menalled
Article
Microbiology
Suzanne L. Ishaq, Tim Seipel, Carl Yeoman, Fabian D. Menalled
Article
Biochemistry & Molecular Biology
Huawei Zeng, Bryan D. Safratowich, Zhenhua Liu, Michael R. Bukowski, Suzanne L. Ishaq
Summary: This study showed that supplementation of calcium and vitamin D can reduce colonic inflammation, oncogenic signaling, secondary bile acids, and bacterial dysbiosis in mice fed with a Western diet.
JOURNAL OF NUTRITIONAL BIOCHEMISTRY
(2021)
Article
Microbiology
Suzanne L. Ishaq, Francisco J. Parada, Patricia G. Wolf, Carla Y. Bonilla, Megan A. Carney, Amber Benezra, Emily Wissel, Michael Friedman, Kristen M. DeAngelis, Jake M. Robinson, Ashkaan K. Fahimipour, Melissa B. Manus, Laura Grieneisen, Leslie G. Dietz, Ashish Pathak, Ashvini Chauhan, Sahana Kuthyar, Justin D. Stewart, Mauna R. Dasari, Emily Nonnamaker, Mallory Choudoir, Patrick F. Horve, Naupaka B. Zimmerman, Ariangela J. Kozik, Katherine Weatherford Darling, Adriana L. Romero-Olivares, Janani Hariharan, Nicole Farmer, Katherine A. Maki, Jackie L. Collier, Kieran C. O'Doherty, Jeffrey Letourneau, Jeff Kline, Peter L. Moses, Nicolae Morar
Summary: Humans are closely connected to microorganisms in the natural world, with microbiomes playing a crucial role in the health and development of macroorganisms, societies, and ecosystems. Access to beneficial microbiomes is limited by public resources, highlighting the sociopolitical contexts of microbiomes.
Article
Multidisciplinary Sciences
Suzanne L. Ishaq, Alice Hotopp, Samantha Silverbrand, Jonathan E. Dumont, Amy Michaud, Jean D. MacRae, S. Patricia Stock, Eleanor Groden
Summary: The necromenic nematode Pristionchus entomophagus found in nests of invasive European ants may contribute to ant mortality by transferring environmental bacteria. Bacterial distribution in nematodes varies between adult and juvenile stages, with host species influencing bacterial community profiles. Host species also share certain bacterial sequences across ants, nematodes, and exposed wax moth larvae.
Article
Green & Sustainable Science & Technology
Tim Seipel, Suzanne L. Ishaq, Christian Larson, Fabian D. Menalled
Summary: This study evaluated the impact of increased soil temperature and reduced moisture on three different cropping systems. The results showed that changes in temperature and moisture had a minor effect on weed communities, but did cause a shift in the composition of the communities. The no-till conventional system had lower species richness and diversity compared to the organic systems. The results highlight the importance of understanding the ecological mechanisms that structure weed communities and integrating multiple tactics to manage weeds.
Editorial Material
Microbiology
Sue Ishaq, Jack Gilbert
Article
Multidisciplinary Sciences
Suzanne L. Ishaq, Sarah M. Turner, Grace Lee, M. Scarlett Tudor, Jean D. MacRae, Heather Hamlin, Deborah Bouchard
Summary: The American lobster, a valuable crustacean, is declining in southern locations along the North Atlantic coast of North America due to increasing ocean temperatures and disease. We monitored 57 adult female lobsters for a year and found that the bacterial community on lobster shells was affected by water temperature, disease severity, and molt stage. Some bacteria were prevalent on healthy shells but less abundant on diseased shells.
Article
Construction & Building Technology
Jason Stenson, Suzanne L. Ishaq, Aurelie Laguerre, Andrew Loia, Georgia MacCrone, Ignace Mugabo, Dale Northcutt, Mariapaola Riggio, Andre Barbosa, Elliott T. Gall, Kevin Van Den Wymelenberg