Article
Agronomy
Jingchao Chen, Zhiling Li, Hailan Cui, Haiyan Yu, Xiangju Li
Summary: This study investigates the resistance levels and potential resistance mechanisms of two goosegrass populations collected from orchards. Results showed that the LL population had a Pro106Leu (P106L) mutation and the SS population had a Pro106Ser (P106S) amino acid substitution. Both populations exhibited higher expression of EPSPS, and the LL population showed higher relative copy number and EPSPS protein content than the SS population. Overall, the study confirms that the simultaneous evolution of mutation and amplification in EPSPS confers moderate glyphosate resistance in goosegrass.
Article
Agronomy
Dal-Hoe Koo, Yoonha Ju, Karthik Putta, Rajendran Sathishraj, Nilda Roma-Burgos, Mithila Jugulam, Bernd Friebe, Bikram S. S. Gill
Summary: An Italian ryegrass population from Arkansas, USA developed glyphosate resistance due to EPSPS gene amplification. The physical mapping of amplified copies of EPSPS gene through FISH suggests the presence of these copies in extrachromosomal DNA elements. Further analysis by PFGE and DNA blotting reveals that the extrachromosomal DNA containing EPSPS is approximately 400 kb in size, similar to eccDNA replicon in Amaranthus palmeri.
PEST MANAGEMENT SCIENCE
(2023)
Article
Plant Sciences
Zhao Li, Zhen Zhang, Yinbo Liu, Yuanqi Ma, Xing Lv, Dongmei Zhang, Qishen Gu, Huifeng Ke, Liqiang Wu, Guiyin Zhang, Zhiying Ma, Xingfen Wang, Zhengwen Sun
Summary: Weeds have serious negative effects on crop yield and quality. The use of herbicides is an effective approach to address weed-related issues, given that manual weeding is time-consuming and physically demanding. The EPSPS and BAR genes have been widely used to enhance crop resistance to herbicides. However, cotton, the most important natural fiber crop in China, is not herbicide-tolerant, and the EPSPS and BAR gene families have not been characterized in cotton. In this study, the EPSPS and BAR gene families in cotton were comprehensively characterized at the genome-wide level, providing potential candidate genes for understanding herbicide resistance mechanisms.
Article
Agronomy
Rajesh Barua, Jenna Malone, Peter Boutsalis, Gurjeet Gill, Christopher Preston
Summary: EPSPS gene amplification was identified in one glyphosate-resistant P. annua population, suggesting the involvement of a single dominant gene in the inheritance of glyphosate resistance in this population.
PEST MANAGEMENT SCIENCE
(2022)
Article
Agronomy
Patricia Adu-Yeboah, Jenna M. Malone, Gurjeet Gill, Christopher Preston
Summary: The inheritance of glyphosate resistance in Hordeum glaucum is non-Mendelian, with F-2 progenies showing high variation in EPSPS gene copies.
PEST MANAGEMENT SCIENCE
(2021)
Article
Agronomy
Charles W. Cahoon, David L. Jordan, Patrick J. Tranel, Alan C. York, Chance Riggins, Richard Seagroves, Matthew Inman, Wesley Everman, Ramon Leon
Summary: Comparing the fitness of herbicide-resistant and herbicide-susceptible weed biotypes is crucial for managing herbicide resistance. Previous research has shown that there is little to no fitness penalty from amplification of the EPSPS gene (a mechanism of glyphosate resistance) in Palmer amaranth. However, in the absence of glyphosate, Palmer amaranth plants with EPSPS amplification are relatively less fit, but this reduced fitness does not result in differences in interference with cotton.
Article
Plant Sciences
Wei Wang, Hong Guo, Chongning Wu, Hui Yu, Xiaokang Li, Guangfeng Chen, Jichun Tian, Zhiying Deng
Summary: A genome-wide association study was conducted on 205 wheat accessions with 24,355 SNPs to identify important loci and candidate genes for controlling mineral element accumulation in wheat grains. A total of 101 marker-trait associations (MTAs) affecting the content of nine mineral elements was identified. The study revealed the existence of gene interactions among mineral elements and provided new insights into the genetic control of mineral element concentrations in wheat grain.
Article
Clinical Neurology
Yu-Chin An, Chia-Lin Tsai, Chih-Sung Liang, Yu-Kai Lin, Guan-Yu Lin, Chia-Kuang Tsai, Yi Liu, Sy-Jou Chen, Shih-Hung Tsai, Kuo-Sheng Hung, Fu-Chi Yang
Summary: In this study, several novel loci associated with insomnia in migraineurs were identified through GWAS in a Han Chinese population in Taiwan, providing insights into the possible genetic basis of insomnia and migraine comorbidity.
NATURE AND SCIENCE OF SLEEP
(2022)
Article
Biochemistry & Molecular Biology
Samia Nisar, Magali Torres, Alassane Thiam, Bruno Pouvelle, Florian Rosier, Frederic Gallardo, Oumar Ka, Babacar Mbengue, Rokhaya Ndiaye Diallo, Laura Brosseau, Salvatore Spicuglia, Alioune Dieye, Sandrine Marquet, Pascal Rihet
Summary: This study systematically investigated the regulatory effect of genetic variants associated with severe malaria and identified a regulatory region that affects the risk of severe malaria. The study also demonstrated the functional activity of the identified genetic variants.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Agronomy
Koffi Badou-Jeremie Kouame, Mary C. Savin, Gulab Rangani, Thomas R. Butts, Matthew B. Bertucci, Nilda Roma-Burgos
Summary: This study evaluated the drought tolerance differences between herbicide-resistant and -susceptible Palmer amaranth accessions. The results showed variations in drought tolerance between different accessions. While resistance to S-metolachlor may contribute to increased drought tolerance, further experiments are needed to confirm this finding. Increasing EPSPS copy numbers did not enhance the drought tolerance of Palmer amaranth. These findings suggest that both resistant and susceptible Palmer amaranth populations will not be disadvantaged in the face of increasing droughts, necessitating alternative and diverse management strategies for effective control.
Article
Agronomy
Yaseen Khalil, Michael B. Ashworth, Heping Han, Yu Qin, Roberto L. Rocha, Brent Pritchard, David Cameron, Hugh J. Beckie
Summary: This study identified the first case of field-evolved glyphosate-resistant capeweed in Western Australia, with the resistant population showing over 11-fold resistance to glyphosate compared to susceptible populations. The resistant capeweed population also showed tolerance to other herbicides, indicating the importance of integrated management strategies to combat herbicide resistance.
PEST MANAGEMENT SCIENCE
(2021)
Article
Microbiology
Qin Qi, Vaheesan Rajabal, Timothy M. Ghaly, Sasha G. Tetu, Michael R. Gillings
Summary: In this study, it is shown that temperate and virulent bacteriophages carry integrons, including integron-integrase genes, attC/attI recombination sites and gene cassettes. These elements, normally found in bacteria, allow for the capture, expression, and rearrangement of mobile gene cassettes. It is also demonstrated that a panel of attC sites carried in virulent phages can be integrated into the attI1 recombination site using an attC x attI recombination assay with the bacterial class 1 integron-integrase (IntI1). This discovery opens up a new route for lateral transfer of integrons and their cargo genes between bacterial host cells.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Biology
Xuewen Wang, Shiyu Chen, Xiao Ma, Anna E. J. Yssel, Srinivasa R. Chaluvadi, Matthew S. Johnson, Prakash Gangashetty, Falalou Hamidou, Moussa D. Sanogo, Arthur Zwaenepoel, Jason Wallace, Yves Van de Peer, Jeffrey L. Bennetzen, Allen Van Deynze
Summary: White fonio, a vital crop in West Africa, was found to have a highly diverse genome with potential for future improvement. Genomic analysis revealed genetic diversity largely partitioned across a north-south gradient coinciding with distinct grassland domains. This information should empower future research into further domestication and improvement of fonio.
Review
Biochemistry & Molecular Biology
Min Zhang, Jiajia Wu, Zhaoai Shi, Aocheng Cao, Wensheng Fang, Dongdong Yan, Qiuxia Wang, Yuan Li
Summary: This article summarizes simple, rapid, specific, and highly effective molecular technologies used for detecting and identifying foodborne pathogens. These technologies include polymerase chain reaction, isothermal amplification, loop-mediated isothermal amplification, nucleic acid sequence-based amplification, as well as gene chip and gene probe technology. The principles, research support, and advantages and disadvantages of each technology are summarized.
Article
Biochemistry & Molecular Biology
Junho Cha, Sungkyoung Choi
Summary: By investigating the genomes of 66,857 individuals from different studies, we identified two potentially novel genes (SETDB1 and ZNF8) and five previously reported genes (DM4C, DOCK8, MMP20, MYL7, and ADCY9) associated with increased asthma risk.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Plant Sciences
Colin K. Khoury, Stephen Brush, Denise E. Costich, Helen Anne Curry, Stef Haan, Johannes M. M. Engels, Luigi Guarino, Sean Hoban, Kristin L. Mercer, Allison J. Miller, Gary P. Nabhan, Hugo R. Perales, Chris Richards, Chance Riggins, Imke Thormann
Summary: Crop diversity is crucial for agriculture productivity, resilience, and adaptive capacity. Loss of this diversity, known as crop genetic erosion, is a major concern. Evidence shows that changes in crop diversity have led to significant losses, maintenance, and increases in various contexts, depending on species, scale, region, and analytical approach. Further research and actions are needed to understand and mitigate the impacts of crop genetic erosion.
Article
Multidisciplinary Sciences
Marcelo R. A. de Figueiredo, Anita Kuepper, Jenna M. Malone, Tijana Petrovic, Ana Beatriz T. B. de Figueiredo, Grace Campagnola, Olve B. Peersen, Kasavajhala V. S. K. Prasad, Eric L. Patterson, Anireddy S. N. Reddy, Martin F. Kubes, Richard Napier, Franck E. Dayan, Christopher Preston, Todd A. Gaines
Summary: A 27-nucleotide deletion removing nine amino acids in the degron tail of the auxin coreceptor Aux/IAA2 (SoIAA2) is associated with 2,4-D resistance in a Sisymbrium orientale weed population. The deletion reduces binding to TIR1 and increases dissociation rates, resulting in resistance to synthetic auxin herbicides.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Agronomy
Aimone Porri, Michael Betz, Kathryn Seebruck, Michael Knapp, Philipp Johnen, Matthias Witschel, Raphael Aponte, Rex Liebl, Patrick J. Tranel, Jens Lerchl
Summary: In this study, the efficacy of a new triazinone-type inhibitor, trifludimoxazin, in inhibiting PPO2 enzymes carrying target site mutations was assessed. The results strongly suggest that trifludimoxazin is a potent PPO-inhibiting herbicide. This study is of significant importance for the design of new herbicides to control resistant weeds.
PEST MANAGEMENT SCIENCE
(2023)
Article
Agronomy
Neeta Soni, Eric P. Westra, Giuseppe Allegretta, Andre L. S. Araujo, Camila F. de Pinho, Sarah Morran, Jens Lerchl, Franck E. Dayan, Philip Westra, Todd A. Gaines
Summary: In this study, the herbicide resistance of three winter annual grasses was investigated in winter wheat production areas in Colorado. Three imazamox-resistant populations of feral rye were identified, with two populations having target-site mutations and one population showing enhanced metabolism. This research provides the first report of both target-site and metabolism-based imazamox resistance in feral rye.
PEST MANAGEMENT SCIENCE
(2022)
Article
Agriculture, Multidisciplinary
Marcelo R. A. De Figueiredo, Hamlin Barnes, Claudia M. Boot, Ana Beatriz T. B. De Figueiredo, Scott J. Nissen, Franck E. Dayan, Todd A. Gaines
Summary: Amaranthus tuberculatus, a waterhemp plant species resistant to 2,4-dichlorophenoxyacetic acid (2,4-D), has been found to possess rapid metabolic detoxification ability. Through a novel detoxification mechanism, resistant plants hydroxylate 2,4-D into a less toxic metabolite, while susceptible plants conjugate 2,4-D to aspartate. This evolution of detoxification reactions in resistant plants allows for more efficient detoxification of 2,4-D.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2022)
Article
Agronomy
Feng-Yan Zhou, Heping Han, Yun-Jing Han, Alex Nyporko, Qin Yu, Hugh J. J. Beckie, Stephen B. B. Powles
Summary: The expression of AKR genes (LrAKR4C10 and LrAKR1) in glyphosate-resistant populations of Lolium rigidum from Western Australia is induced by glyphosate and 2,4-D, resulting in enhanced glyphosate metabolism and moderate resistance to glyphosate.
PEST MANAGEMENT SCIENCE
(2023)
Article
Biology
Damilola A. Raiyemo, Lucas K. Bobadilla, Patrick J. Tranel
Summary: This study sequenced and analyzed the genomes of seven dioecious Amaranthus species, revealing their phylogenetic relationships and identifying genes involved in sex function. Coverage analysis identified candidate genes within the male-specific regions of A. palmeri and A. tuberculatus.
Article
Agriculture, Multidisciplinary
Huan Lu, Yingze Liu, Mengshuo Li, Heping Han, Fengyan Zhou, Alex Nyporko, Qin Yu, Sheng Qiang, Stephen Powles
Summary: A wild radish population has developed cross-resistance to HPPD-inhibiting herbicides without previous exposure, thanks to enhanced metabolism. The study identified three highly expressed genes in resistant plants, and overexpression of these genes provided resistance against specific herbicides. The findings suggest that overexpression of multiple herbicide-metabolizing genes contributes to herbicide resistance in the wild radish population.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2023)
Article
Agriculture, Multidisciplinary
Carlos A. G. Rigon, Luan Cutti, Guilherme M. Turra, Enrico Z. Ferreira, Christian Menegaz, Walker Schaidhauer, Franck E. Dayan, Todd A. Gaines, Aldo Merotto
Summary: Herbicide mixtures are commonly used to control a wide range of weeds, including those resistant to specific herbicides. However, the impact of mixtures on the evolution of herbicide resistance through enhanced metabolism is not well understood. In this study, the effects of a fenoxaprop-p-ethyl and imazethapyr mixture on herbicide resistance evolution in Echinochloa crus-galli were evaluated. Results showed that recurrent selection with the mixture led to decreased control and increased resistance to several herbicides. Additionally, it was found that the main contributor to decreased control was fenoxaprop. This study highlights the need for using fully recommended herbicide rates in mixtures to reduce the risk of resistance evolution.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2023)
Article
Agronomy
Amanda dos Santos Souza, Jessica Ferreira Lourenco Leal, Jacob Samuel Montgomery, Mirella Farinelli Ortiz, Andre Lucas Simoes Araujo, Sarah Morran, Marcelo Rodrigues Alves de Figueiredo, Ana Claudia Langaro, Luiz Henrique Saes Zobiole, Scott Jay Nissen, Todd Adam Gaines, Camila Ferreira de Pinho
Summary: A physiological rapid response was found in a biotype of Conyza sumatrensis, which may contribute to its resistance to 2,4-D herbicide. The resistance is mainly attributed to the reduced translocation of 2,4-D in the plants. The resistant plants also show lower metabolic capacity for 2,4-D compared to the susceptible plants.
PEST MANAGEMENT SCIENCE
(2023)
Review
Agronomy
Abigail L. Barker, John Pawlak, Stephen O. Duke, Roland Beffa, Patrick J. Tranel, Joe Wuerffel, Bryan Young, Aimone Porri, Rex Liebl, Raphael Aponte, Douglas Findley, Michael Betz, Jens Lerchl, Stanley Culpepper, Kevin Bradley, Franck E. Dayan
Summary: This article reviews the importance and current state of PPO-inhibiting herbicides, which have been used for 60 years since their first introduction. Recent increased interest in PPO-inhibiting herbicides, due to their increased use and cases of resistance, has led to a better understanding of the mechanism of action of PPO inhibitors. The article discusses the importance of the two isoforms of PPO in plants, current knowledge of target-site resistance mechanisms, non-target site resistance cases, and crop selectivity mechanisms. It emphasizes the need for consistent and reproducible greenhouse screening and target-site mutation assays to effectively study and compare PPO-inhibitor resistance cases.
Article
Plant Sciences
Lucas K. Bobadilla, Yousoon Baek, Patrick J. Tranel
Summary: This study identifies differential gene expression patterns between males and females in waterhemp and Palmer amaranth. It discovers potential key genes involved in sex determination and supports the hypothesis of two different evolutionary events for dioecy in the genus.
Review
Agronomy
Lucas K. Bobadilla, Patrick J. Tranel
Summary: The emergence of herbicide-resistant weeds is a significant threat to modern agriculture. This review discusses challenges of predicting herbicide cross resistance and highlights advancements in genomics and structural biology techniques that could be used to improve such prediction.
PEST MANAGEMENT SCIENCE
(2023)
Article
Ecology
Damilola A. A. Raiyemo, Patrick J. J. Tranel
Summary: This study investigated the phylogenetic relationships among dioecious amaranths and found incongruence in plastid gene tree. The results provide valuable resources and a framework for further evolutionary analyses of the Amaranthus genus.
BMC ECOLOGY AND EVOLUTION
(2023)
Review
Plant Sciences
Marcos Yanniccari, Todd Gaines, Julio Scursoni, Rafael de Prado, Martin Vila-Aiub
Summary: Herbicide resistance in weeds is an evolutionary process that leads to the convergence of similar resistance mechanisms in geographically distant weed populations. Amaranthus species show remarkable ability in evolving resistance and invading new environments globally. North America and South America have different cases of herbicide-resistant Amaranthus species, with around 70% of them reported in global soybean and corn crops. Multiple herbicide resistance mechanisms are evident in weed species. Seed-mediated gene flow plays a crucial role in the spread of herbicide-resistant Amaranthus species populations. The reduction of herbicide selection intensity through diverse and integrated weed control practices should be a common goal in weed management programs.
ADVANCES IN WEED SCIENCE
(2022)
