Article
Biotechnology & Applied Microbiology
Yingce Duan, Haiyan Han, Jianzhao Qi, Jin-ming Gao, Zhichao Xu, Pengchao Wang, Jie Zhang, Chengwei Liu
Summary: This study reports the genome of I. obliquus and discusses its characteristics and functional annotations in detail. The study also predicts secondary metabolic biosynthesis-related genes, providing genomic information for future studies on its associated molecular mechanism.
Article
Veterinary Sciences
Li Zhan, Jiaqi Zhang, Boyu Zhao, Xintian Li, Xiqing Zhang, Renge Hu, Emad Mohammed Elken, Lingcong Kong, Yunhang Gao
Summary: Pasteurella multocida, a primary pathogen causing bovine respiratory disease, has developed a high fluoroquinolone resistant strain Pm64 through continuous exposure to enrofloxacin. Despite minimal genomic differences between the Pm3 and Pm64 strains, several genes related to virulence were found to be differentially expressed, potentially contributing to the attenuation of pathogenicity in Pm64. This study sheds light on the mechanisms of virulence attenuation in antibiotic-resistant P. multocida, providing valuable insights for combating antimicrobial resistance.
FRONTIERS IN VETERINARY SCIENCE
(2021)
Article
Biochemistry & Molecular Biology
Yuwei Sun, Jie Shao, Haili Liu, Hua Wang, Guangyi Wang, Jianhua Li, Yaping Mao, Zhuo Chen, Ke Ma, Lin Xu, Yong Wang
Summary: This study reported a chromosome-level genome assembly of I. rubescens and discovered a cluster of tandem-duplicated CYP706V oxygenase-encoding genes that are widely distributed in eudicots and almost exclusively emerged in Isodon plants. These findings provide new insights into the evolution of the diterpenoid pathway and have important implications for improving the production of bioactive ent-kaurene-type diterpenoids.
Article
Biochemistry & Molecular Biology
Lei Sun, Xiaolei Yin, Frederick Leo Sossah, Xuerong Han, Yu Li
Summary: By studying the genomes of Pleurotus placentodes and Pleurotus cystidiosus, we have revealed the genetic mechanism and genomic features behind P. placentodes' adaptability to conifers. The increase in carbohydrate-active enzymes related to pectin and cellulose degradation in P. placentodes may be important for its colonization and degradation of conifers.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2023)
Article
Microbiology
Alexis Dereeper, Nina Allouch, Vincent Guerlais, Maelle Garnier, Laurence Ma, Johan F. F. De Jonckheere, Sandeep J. J. Joseph, Ibne Karim M. Ali, Antoine Talarmin, Isabel Marcelino
Summary: In this study, a high-quality Naegleria pangenome was constructed, revealing that Naegleria may use genome plasticity features to modulate their behavior in different environments. Comparing 14 near-to-complete genome sequences, it was estimated that the Naegleria pangenome consists of 13,943 genes, including 3,563 core and 10,380 accessory genes. Functional annotations showed that a large fraction of Naegleria genes have significant sequence similarity with those in other kingdoms. Comparative analyses showed remarkable genomic heterogeneity in Naegleria, even among closely related strains, indicating extensive genome variability.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Microbiology
Mariana Neri Lucas Kurihara, Ingrid Nayara Marcelino Santos, Ana Karolina Antunes Eisen, Giovana Santos Caleiro, Jansen de Araujo, Romario Oliveira de Sales, Antonio Carlos Pignatari, Mauro Jose Salles
Summary: This study investigated the frequency of C. acnes identification in deep tissue specimens of patients undergoing clean shoulder surgery and evaluated its phenotypic and genetic traits associated with virulence and antibiotic resistance patterns. The presence of polyclonal C. acnes in multiple deep tissue samples does not necessarily indicate infection.
Article
Genetics & Heredity
Wu Gan, Chenxi Zhao, Xinran Liu, Chao Bian, Qiong Shi, Xinxin You, Wei Song
Summary: The study constructed a genome assembly of spiny head croaker, revealing a closer relationship between C. lucidus and Larimichthys crocea, with some gene families related to calcium signaling pathway and inner ear function significantly expanded. Critical deletions or mutations were identified in some otolith-related genes, suggesting possible molecular mechanisms for well-developed otoliths in the Sciaenidae family.
FRONTIERS IN GENETICS
(2021)
Article
Plant Sciences
Benjamin Spaniol, Julia Lang, Benedikt Venn, Lara Schake, Frederik Sommer, Matthieu Mustas, Stefan Geimer, Francis-Andre Wollman, Yves Choquet, Timo Muhlhaus, Michael Schroda
Summary: The study identified the role of the LPA2 protein in the biogenesis of photosystem II (PSII) in Chlamydomonas, revealing its importance in maintaining the stability and structure of PSII. Mutations in LPA2 resulted in slower growth, hypersensitivity to high light, and aberrant thylakoid membrane structures. Complexome profiling showed alterations in PSII subunit levels and dynamics, suggesting the critical role of LPA2 in PSII assembly and stability.
JOURNAL OF EXPERIMENTAL BOTANY
(2022)
Article
Microbiology
Bram Spruijtenburg, Shivaprakash M. Rudramurthy, Eelco F. J. Meijer, Merlijn H. I. van Haren, Harsimran Kaur, Arunaloke Chakrabarti, Jacques F. Meis, Theun de Groot
Summary: W. anomalus is a pathogen that causes infections in newborns and infants with high mortality rates. Outbreaks of W. anomalus are common in healthcare facilities, especially in neonatal intensive care units (NICUs). By using a novel STR genotyping scheme, we identified 38 different genotypes and discovered simultaneous outbreak events within the same hospital.
Article
Optics
Ali Altaqui, Harry Schrickx, Pratik Sen, Lingshan Li, Jeromy Rech, Jin-Woo Lee, Nrup Balar, Wei You, Bumjoon J. Kim, Michael Escuti, Robert Kolbas, Brendan T. O'Connor, Michael Kudenov
Summary: The bio-inspired spectral and polarization sensor structure integrates P-OPVs and LCP retarders, enabling color tuning and polarization sensitivity. This structure allows for detecting spectral and polarimetric contents along the same optical axis, overcoming limitations associated with conventional division-of-focal plane sensors.
Article
Plant Sciences
Thomas W. Woehner, Ofere F. Emeriewen, Alexander H. J. Wittenberg, Koen Nijbroek, Rui Peng Wang, Evert-Jan Blom, Harrie Schneiders, Jens Keilwagen, Thomas Berner, Katharina J. Hoff, Lars Gabriel, Hannah Thierfeldt, Omar Almolla, Lorenzo Barchi, Mirko Schuster, Janne Lempe, Andreas Peil, Henryk Flachowsky
Summary: Sour cherry is an important allotetraploid cherry species that evolved through hybridization of the tetraploid ground cherry and a diploid sweet cherry ancestor. The genome analysis revealed that the sour cherry genome consists of two subgenomes, showing size reduction compared to ancestral species and traces of homoeologous sequence exchanges throughout. This study confirms that the sour cherry genome is a recently evolved segmental allotetraploid.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Genetics & Heredity
Brandon Collins, Oluwatosin Oluwadare, Philip Brown
Summary: With the advancement of Next Generation Sequencing and Hi-C experiments, high quality genome-wide contact data has become more accessible. The ChromeBat method based on the Bat Algorithm is proposed to solve the Chromosome and Genome Reconstruction problem using real Hi-C data with state-of-the-art performance. ChromeBat contributes algorithmic diversity to the field of Genome Reconstruction, providing an effective approach for solving the problem.
Article
Biotechnology & Applied Microbiology
Bin Zuo, Lotanna Micah Nneji, Yan-Bo Sun
Summary: By analyzing the whole-genome sequences of 14 frog species, this study investigated the variation and evolutionary causes of frog genome size. The results showed that the recent accumulation of transposable elements and the lack of deletion of ancient transposable elements primarily accounted for the evolution of frog genome sizes. Additionally, the abundance and density of simple repeat sequences positively correlated with genome size. However, there was no clear relationship between genome size and habitat types. This study provides important insights into the evolution of frog genome size.
Article
Environmental Sciences
Weiwei Song, Ronghua Li, Yun Zhao, Herve Migaud, Chunlin Wang, Michael Bekaert
Summary: A hybrid reference genome of Sepia pharaonis was generated using a combination of long-read and short-read technologies, identifying a total of 51,541 genes, including reflectin genes responsible for controlling body coloration. This new reference genome provides a valuable resource for future studies on the biology, domestication, and selective breeding of the species.
FRONTIERS IN MARINE SCIENCE
(2021)
Article
Immunology
Ping Fu, Zena Cai, Zhiyuan Zhang, Xiangxian Meng, Yousong Peng
Summary: Virus circular RNAs (circRNA) play important roles in viral infections. This study improved the VirusCircBase database and explored the characteristics of virus circRNAs as well as their correlation with human genes.
EMERGING MICROBES & INFECTIONS
(2023)
Article
Biochemistry & Molecular Biology
Adam A. Nguyen, Kes Lynn Joseph, Adam N. Bussell, Suman Pokhrel, Jonathan A. Karty, Christina M. Kronfel, David M. Kehoe, Wendy M. Schluchter
BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS
(2020)
Article
Biochemistry & Molecular Biology
Lyndsay A. Carrigee, Rania M. Mahmoud, Joseph E. Sanfilippo, Jacob P. Frick, Johann A. Strnat, Jonathan A. Karty, Bo Chen, David M. Kehoe, Wendy M. Schluchter
BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS
(2020)
Article
Chemistry, Organic
Seyyedamirhossein Hosseini, Bishnu Thapa, Maria J. Medeiros, Erick M. Pasciak, Michael A. Pence, Eric B. Twum, Jonathan A. Karty, Xinfeng Gao, Krishnan Raghavachari, Dennis G. Peters, Mohammad S. Mubarak
JOURNAL OF ORGANIC CHEMISTRY
(2020)
Article
Geography, Physical
Andrea M. Shilling, Devon E. Colcord, Jonathan Karty, Angela Hansen, Katherine H. Freeman, Jackson K. Njau, Ian G. Stanistreet, Harald Stollhofen, Kathy D. Schick, Nicholas Toth, Simon C. Brassell
PALAEOGEOGRAPHY PALAEOCLIMATOLOGY PALAEOECOLOGY
(2020)
Article
Biochemistry & Molecular Biology
Nader H. Mahmoudzadeh, Alexander J. Fitt, Daniel B. Schwab, William E. Martenis, Lauren M. Nease, Charity G. Owings, Garrett J. Brinkley, Hongde Li, Jonathan A. Karty, Sunil Sudarshan, Richard W. Hardy, Armin P. Moczek, Christine J. Picard, Jason M. Tennessen
INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY
(2020)
Article
Polymer Science
Priyanka Agarwal, Sapna Chaudhary, Jyoti Porwal, Raj K. Singh, Suheel K. Porwal
Summary: This study synthesized green additives MGA-1 and MGA-2 by incorporating stearyl methacrylate into sunflower oil and soybean oil. Both additives showed excellent rheological behavior and performance at different concentrations, making them suitable for environmentally friendly lubricant formulations.
Article
Multidisciplinary Sciences
Theophile Grebert, Adam A. Nguyen, Suman Pokhrel, Kes Lynn Joseph, Morgane Ratin, Louison Dufour, Bo Chen, Allissa M. Haney, Jonathan A. Karty, Jonathan C. Trinidad, Laurence Garczarek, Wendy M. Schluchter, David M. Kehoe, Frederic Partensky
Summary: Marine Synechococcus cyanobacteria utilize a wide pigment diversity in their light-harvesting complexes, allowing them to adapt to different light conditions through sophisticated chromatic acclimation mechanisms. These two types of chromatic acclimaters occupy distinct complementary ecological niches in the ocean, acquired through different genomic islands for adaptation to different light wavelengths.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Energy & Fuels
Priyanka Agarwal, Suheel K. Porwal
Summary: This study synthesized novel multifunctional copolymer additives as greener alternatives to conventional additives in the lubricant industry. The additives, derived from non-edible/waste cooking oil, showed improved viscosity index, pour point depressant properties, and rheological behavior when added to base oil. Waste cooking oil was found to be a promising and environmentally friendly alternative for the preparation of multifunctional additives.
BIOMASS CONVERSION AND BIOREFINERY
(2023)
Article
Energy & Fuels
Nisha Singh, Priyanka Agarwal, Jyoti Porwal, Suheel K. Porwal
Summary: In recent years, there has been a significant increase in the use of petroleum-based products in the transportation and industrial sectors, which has resulted in environmental damage and concerns about future energy security. Waste cooking oil is considered the best alternative to mineral oil in the lubricant industry. In this study, waste cooking oil extracted using curcumin from soybean oil was doped with multifunctional green additives. The formulated biolubricant exhibited improved viscosity, viscosity index, pour point, and rheological behavior, making it suitable for extreme temperature conditions.
BIOMASS CONVERSION AND BIOREFINERY
(2022)
Article
Environmental Sciences
Nisha Singh, Priyanka Agarwal, Suheel K. Porwal
Summary: Developing eco-friendly formulations using waste cooking oil as renewable biomass is commercially important in the fuels and lubricant industry. In this study, a biolubricant was prepared by blending curcumin extracted soybean waste cooking oil with mineral base oil, and its tribological, rheological, and thermophysical characteristics were analyzed. The results showed that the waste cooking oil-based biolubricant was more effective than the mineral base oil at extreme temperature conditions.
WASTE AND BIOMASS VALORIZATION
(2022)
Article
Energy & Fuels
Sapna Chaudhary, D. T. K. Dora, Devarapu Srinivasa Reddy, Suheel K. Porwal
Summary: In this study, sustainable ultralight aerogels were successfully synthesized from renewable waste tissue paper by cross-linking polyvinyl alcohol and glyoxal. The aerogel exhibited excellent swelling and hemostatic performance, and showed non-toxicity towards mouse embryo fibroblast cells. It also demonstrated low thermal conductivity, making it a promising material for various applications.
BIOMASS CONVERSION AND BIOREFINERY
(2022)
Article
Engineering, Chemical
Priyanka Agarwal, Suheel K. Porwal, Jyoti Porwal, Raj K. Singh, Naveen Singhal
Summary: A multifunctional nanoadditive GO-N-PPDA was synthesized and characterized in this study. The results showed that GO-N-PPDA exhibited excellent properties including antioxidation, reduction of wear and friction, and improvement of thermophysical properties.
LUBRICATION SCIENCE
(2022)
Article
Materials Science, Multidisciplinary
Priyanka Agarwal, Jyoti Porwal, Naveen Singhal, Suheel K. Porwal
Summary: This study reported the synthesis of a nanoadditive from graphene oxide and hexadecanol, which showed improved viscosity index and pour point at lower concentrations in the mineral base oil. The resulting lubricant-doped graphene oxide-hexadecanol dispersion exhibited non-Newtonian behavior and significantly reduced wear scar diameter and coefficient of friction compared to the mineral base oil.
BULLETIN OF MATERIALS SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Lyndsay A. Carrigee, Jacob P. Frick, Jonathan A. Karty, Laurence Garczarek, Frederic Partensky, Wendy M. Schluchter
Summary: Synechococcus cyanobacteria utilize various wavelengths of light for photosynthesis due to the pigment diversity within their light-harvesting phycobilisomes, which contain two forms of phycoerythrin protein (PEI and PEII) in the strain RS9916. The role of MpeV, a putative lyase isomerase, in biosynthesis of PEI and PEII involves covalently attaching a doubly linked phycourobilin to cysteine residues on the beta-subunit of both proteins, influenced by other lyases such as CpeS and chaperone-like protein CpeZ.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2021)
Article
Electrochemistry
Ana G. Couto Petro, Bishnu Thapa, Jonathan A. Karty, Krishnan Raghavachari, Lane A. Baker, Dennis G. Peters
JOURNAL OF THE ELECTROCHEMICAL SOCIETY
(2020)
Article
Chemistry, Organic
Faiza Diaba, Gisela Trenchs
Summary: The first violet light-mediated synthesis of gamma- and delta-lactams from N-alkenyl trichloroacetamides is reported in this paper. The reactions are conducted in tetrahydrofuran or 2-methyltetrahydrofuran as the sole solvent without catalysts or additives, under non-anhydrous conditions in an air atmosphere where the solvent serves as the radical initiator.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)
Article
Chemistry, Organic
Feroze Hussain, Sajjad Ahmed, Ashiq Hussain Padder, Qazi Naveed Ahmed
Summary: This study reports a novel and efficient one-pot synthesis method for mixed phosphorotrithioates, which does not require supplementary additives and shows broad applicability.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)
Article
Chemistry, Organic
Hyunjin Oh, Ikyon Kim
Summary: A new 1,2,4-triazole-pyrrolo[1,2-a]pyrazine hybrid system, 6-acylpyrrolo[1,2-a][1,2,4]triazolo[5,1-c]pyrazine, was synthesized using a catalyst-free method. This method involved sequential exposure of pyrrole-2-carbonitrile-derived substrates to DMF-DMA and acyl hydrazide, resulting in the formation of acylated pyrazine and 1,2,4-triazole rings, enabling the installation of various substituents at specific positions on the core skeleton.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)
Article
Chemistry, Organic
Ming Yan, Si-fan Wang, Yong-po Zhang, Jin-zhong Zhao, Zhuo Tang, Guang-xun Li
Summary: Here we developed an efficient photocatalytic approach for the convenient preparation of sulfinamides. The reaction allows for the gram-scale preparation of sulfinamides and the one-pot synthesis of various sulfonyl amides.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)
Article
Chemistry, Organic
Farzaneh Bandehali-Naeini, Zahra Tanbakouchian, Noushin Farajinia-Lehi, Nicolas Mayer, Morteza Shiri, Martin Breugst
Summary: Two tandem catalytic systems were developed for the synthesis of novel 3,4-disubstituted maleimides using the same Ugi adducts. Different maleimide structures can be synthesized using either Pd or Cu catalysis.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)
Article
Chemistry, Organic
Tanya Raghava, Anjan Chattopadhyay, Subhadeep Banerjee, Nivedita Sarkar
Summary: Amine substitution of two ortho fluorine atoms of tetrafluoroterephthalonitrile through SNAr chemistry is easily achievable. But further fluorine substitution is only possible under forcing conditions, yielding valuable fluorophores for bioimaging.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)
Review
Chemistry, Organic
Anju Chadha, Santosh Kumar Padhi, Selvaraj Stella, Sowmyalakshmi Venkataraman, Thangavelu Saravanan
Summary: Alcohol dehydrogenases are enzymes that use cofactors for oxidation or reduction reactions of alcohols or carbonyl compounds. They are utilized in green chemistry and have applications in the production of pharmaceuticals. Recombinant enzymes have solved the challenge of producing purified enzymes in large quantities. Engineered alcohol dehydrogenases have been used in asymmetric synthesis in industry. Various methods have been established for regenerating expensive cofactors to make the enzymatic process more efficient and economically viable.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)