Article
Microbiology
Benjamin J. Callahan, Dmitry Grinevich, Siddhartha Thakur, Michael A. Balamotis, Tuval Ben Yehezkel
Summary: LoopSeq is a commercially available synthetic long-read (SLR) sequencing technology that generates highly accurate long reads from standard short reads, enabling direct identification of microbial genes and species in complex samples. Compared to standard Illumina amplicon sequencing, LoopSeq offers an order-of-magnitude improvement in length and accuracy, allowing accurate identification of species and strains from complex to low-biomass microbiome samples.
Article
Microbiology
Kathrin Spettel, Sonia Galazka, Richard Kriz, Iris Camp, Birgit Willinger
Summary: This study aimed to analyze whether mutations in FKS1 hotspot regions are associated with micafungin resistance in C. albicans isolates. The results showed that no missense mutations were detected in FKS1 hotspot regions in any of the 115 isolates studied, indicating that resistance conferred by alteration of FKS1 seems unlikely.
Article
Multidisciplinary Sciences
Jeremy E. Schreier, Christa B. Smith, Thomas R. Ioerger, Mary Ann Moran
Summary: Bacteria in phycospheres contribute significantly to the metabolism of ocean primary productivity, but studying the interactions among species in these micron-scale environments is challenging. By culturing a transposon mutant library of copiotrophic bacterium Ruegeria pomeroyi DSS-3 with the diatom Thalassiosira pseu-donana CCMP1335, we identified genes that mediate bacterial interactions in phycosphere communities. These genes had significant effects on R. pomeroyi fitness, indicating explicit cell-cell interactions in the multibacterial phycospheres.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Parasitology
Ghulam Yasein, Osama Zahid, Emily Minter, Kamran Ashraf, Imran Rashid, Muhammad Zubair Shabbir, Martha Betson, Neil D. Sargison, Umer Chaudhry
Summary: The study describes a metabarcoding deep amplicon sequencing method to identify and determine the Trypanosoma species in co-infecting communities, which can improve the strategies for controlling trypanosomiasis in humans and livestock. The method has potential applications in drug treatment evaluation, understanding drug resistance, describing species interactions during co-infections, and determining the distribution of trypanosomiasis in humans and livestock.
Article
Parasitology
Ju Yeong Kim, Jun Ho Choi, Sung-Hyun Nam, Robert Fyumagwa, Tai-Soon Yong
Summary: By deep sequencing of tsetse fly samples, different mammalian animals were identified as blood-meal sources, and two Trypanosoma species were detected in tsetse flies collected from the Serengeti National Park, Maswa Game Reserve, and Tarangire National Park in Tanzania.
PARASITES & VECTORS
(2022)
Article
Multidisciplinary Sciences
Mark Bustoros, Shankara Anand, Romanos Sklavenitis-Pistofidis, Robert Redd, Eileen M. Boyle, Benny Zhitomirsky, Andrew J. Dunford, Yu-Tzu Tai, Selina J. Chavda, Cody Boehner, Carl Jannes Neuse, Mahshid Rahmat, Ankit Dutta, Tineke Casneuf, Raluca Verona, Efstathis Kastritis, Lorenzo Trippa, Chip Stewart, Brian A. Walker, Faith E. Davies, Meletios-Athanasios Dimopoulos, P. Leif Bergsagel, Kwee Yong, Gareth J. Morgan, Francois Aguet, Gad Getz, Irene M. Ghobrial
Summary: This study identifies six distinct molecular and clinical subtypes of smoldering multiple myeloma (SMM) using genetic alterations analysis. Three of these subtypes are associated with an increased risk of progression to active multiple myeloma.
NATURE COMMUNICATIONS
(2022)
Article
Thermodynamics
Xianghui Huang, Runkeng Liu, Zhenyu Liu
Summary: This study investigates the stable evaporation of ultra-thin water film on a hot spot with a designed nanopillar structure. The results show that the nanopillar array improves the evaporation stability and heat transfer performance due to strong solid-liquid interaction. Increasing the number of nanopillars enhances both the evaporation performance and liquid replenishment capacity. Furthermore, the configuration of nanopillar array on the whole surface reduces temperature and delays dry out, although it may also decrease the average evaporation rate. These findings provide guidance for thermal design in chip cooling techniques under high heat flux applications.
INTERNATIONAL JOURNAL OF THERMAL SCIENCES
(2022)
Article
Microbiology
Nitin Keshari, Yang Zhao, Sudipta Kumar Das, Tao Zhu, Xuefeng Lu
Summary: The diversity and composition of cyanobacteria in representative hot springs of Yunnan Province, China were explored using a combination of cultivation-independent and -dependent studies. The study identified a total of 19 cyanobacterial taxa with potential biotechnological usage out of 45 genera isolated, showing promise for future taxonomic novelties and high biotechnological potential.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Damla Ovek, Zeynep Abali, Melisa Ece Zeylan, Ozlem Keskin, Attila Gursoy, Nurcan Tuncbag
Summary: Proteins interact through interfaces and abnormal interactions may cause diseases. Discovering small molecules that modulate protein interactions is challenging but has high therapeutic potential. Hot spot prediction is crucial for drug design.
CURRENT OPINION IN STRUCTURAL BIOLOGY
(2022)
Article
Parasitology
Ayaz Shaukat, Qasim Ali, Lucy Raud, Abdul Wahab, Taj Ali Khan, Imran Rashid, Muhammad Rashid, Mubashir Hussain, Mushtaq A. Saleem, Neil D. Sargison, Umer Chaudhry
Summary: Pyrimethamine, introduced in the 1980s as a malaria treatment, has become a common drug for malaria control. Recent research using deep amplicon sequencing technology revealed the evolutionary origins of pyrimethamine resistance in Plasmodium vivax. Different mutations, such as 58R and 173L, have shown both common and multiple origins, providing insights for mitigation strategies.
Article
Oncology
Claudia H. D. Le Guin, Norbert Bornfeld, Nikolaos E. Bechrakis, Leyla Jabbarli, Heike Richly, Dietmar R. Lohmann, Michael Zeschnigk
Summary: The study found that detecting ctDNA signals in the plasma of patients with uveal melanoma could provide a time advantage over clinical diagnosis of metastases or tumor recurrence, and longer lead times are expected with shortened intervals between samplings.
Article
Hematology
Efstathios Kastritis, Magdalini Migkou, Dimitra Dalampira, Maria Gavriatopoulou, Despina Fotiou, Maria Roussou, Nikolaos Kanellias, Ioannis Ntanasis-Stathopoulos, Panagiotis Malandrakis, Foteini Theodorakakou, Aggeliki Sevastoudi, Evangelos Eleutherakis-Papaiakovou, Theodora Triantafyllou, Evangelos Terpos, Eirini Katodritou, Meletios A. Dimopoulos
Summary: The presence of numerical abnormalities of chromosome 1q (+1q21) in patients with multiple myeloma is associated with advanced disease and inferior prognosis, especially in those with higher disease stage.
AMERICAN JOURNAL OF HEMATOLOGY
(2022)
Article
Ecology
Christopher M. Martinez, Sarah T. Friedman, Katherine A. Corn, Olivier Larouche, Samantha A. Price, Peter C. Wainwright
Summary: Research shows that deep-sea fishes have twice the body shape disparity compared to shallow waters, driven by elevated rates of evolution in traits associated with locomotion. Deep-sea fishes adopt forms suited to slow and periodic swimming, while shallow living species are concentrated around shapes conferring strong, sustained swimming capacity and manoeuvrability.
Article
Multidisciplinary Sciences
Muhammad Yasir, Arooj K. Qureshi, Esam Azhar
Summary: This study analyzed sediment samples from the non-volcanic Tatta Pani hot springs in Azad Kashmir using both culture-dependent and culture-independent techniques. The results showed high microbial diversity in the enriched sediment samples but adverse changes in the composition of relatively dominant bacteria. Metagenomic analyses are recommended for further study of hot spring microbiota diversity and functionality.
Article
Biochemistry & Molecular Biology
Susan Schroepfer, Henryk Flachowsky
Summary: The use of the novel CRISPR/Cas12a system in apple demonstrated its potential for genome editing applications by successfully targeting two loci in MdPDS through pre-selected efficient guide RNAs. Analysis showed that fluorescent PCR capillary gel electrophoresis is a sensitive high-throughput genotyping method that allows accurate predictions of indel mutations for multiple loci simultaneously, making it a cost-effective method for efficient selection of homohistont GE lines, especially in species with high frequencies of chimerism.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)