Article
Gastroenterology & Hepatology
Isabelle C. LeLeannec, Robert D. Madoff, Christine C. Jensen
Summary: This study aimed to investigate whether colorectal surgeons versus general surgeons performing elective colectomies for colon cancer resulted in cost savings. The results showed that surgery performed by colorectal surgeons had lower associated costs compared to surgery performed by general surgeons, resulting in savings of $7773 and $4665 from the societal and health care system perspectives, respectively.
DISEASES OF THE COLON & RECTUM
(2023)
Article
Oncology
Gaoyang Wang, Zuozhong Xie, Juan Su, Meishan Chen, Yanhua Du, Qian Gao, Guanxiong Zhang, Hailun Zhang, Xiang Chen, Hong Liu, Leng Han, Youqiong Ye
Summary: This study provides an in-depth analysis of immune-related alternative polyadenylation in cancer, identifying alternative polyadenylation events that may play a role in immune modulation and immunotherapy efficacy.
Article
Entomology
Xiaoyue Hu, James P. Hereward, Duoqi Wang, Qinglang Yang, Yongmo Wang
Summary: In this study, the performance of different host lineages of the aphid Aphis gossypii on cucumbers was investigated. The researchers found that the Malvaceae lineage showed poor performance on cucumbers, but its performance significantly improved after feeding on cucumbers previously infested by the Cucurbit lineage. The infestation altered the metabolism of cucumbers and disrupted the defense-associated phytohormones, leading to the incompatibility of the Malvaceae lineage with cucumbers.
JOURNAL OF PEST SCIENCE
(2023)
Article
Ecology
Natasha de Manincor, Alessandro Fisogni, Nicole E. Rafferty
Summary: Climate change disrupts plant-pollinator mutualisms by causing phenological asynchronies and altering interaction traits. Warming advances flowering onset, peak, and end in plant communities, but has no effect on bee emergence. Warmed plants produce fewer and smaller flowers with less nectar concentration, reducing attractiveness, while warmed bees become more generalized in foraging, reducing effectiveness. Plant-bee interactions decrease in frequency, duration, and peak under warming, resulting in fewer and lighter seeds and pollinator-mediated fitness costs. Climate change diminishes ecosystem services by perturbing plant-pollinator mutualisms.
Article
Multidisciplinary Sciences
Wei Hu, Yangjun Wu, Qili Shi, Jingni Wu, Deping Kong, Xiaohua Wu, Xianghuo He, Teng Liu, Shengli Li
Summary: This study analyzes transcript assembly in over 1000 cancer cell lines and finds common unannotated transcripts associated with drug sensitivity. It establishes a high-confidence RNA binding protein (RBP)-transcript regulatory network and identifies numerous transcripts highly associated with anti-cancer drug sensitivity.
NATURE COMMUNICATIONS
(2022)
Article
Biochemistry & Molecular Biology
Jiucheng He, Thang L. Pham, Azucena H. Kakazu, Abhilash Ponnath, Khanh V. Do, Haydee E. P. Bazan
Summary: This study aims to investigate the anti-inflammatory and anti-angiogenic effects of the bioactive lipid mediator LXA4 on a rat model of severe corneal alkali injury. The findings suggest that LXA4 can reduce corneal opacity, neovascularization, and hyphema, inhibit the release of inflammatory cytokines, and promote corneal repair.
Article
Oncology
Katharina Prieske, Malik Alawi, Anna Jaeger, Maximilian Christian Wankner, Kathrin Eylmann, Susanne Reuter, Patrick Lebok, Eike Burandt, Niclas C. Blessin, Barbara Schmalfeldt, Leticia Oliveira-Ferrer, Simon A. Joosse, Linn Woelber
Summary: The number of women diagnosed with vulvar cancer, especially younger women, has been increasing due to HPV infection. Limited genetic information on VSCC hampers treatment advances, particularly personalized treatments. By exploring RNA expression profiles, potential therapeutic targets for VSCC could be identified for a deeper understanding of its carcinogenesis.
Article
Reproductive Biology
Cai-Xia Yang, Lu Chen, Yu-Wei Yang, Qiao Mou, Zhi-Qiang Du
Summary: The study showed that acute heat stress could affect cell viability, apoptosis, and metabolite production of pig immature Sertoli cells.
Article
Multidisciplinary Sciences
Johann Herrmann, Sascha Buchholz, Panagiotis Theodorou
Summary: Insect-provided pollination services are at risk due to declines in insect pollinator populations caused by urbanisation. This study examines the effects of local habitat quality, degree of urbanisation, and 3D connectivity on flower visitors and plant-flower visitor networks in urban dry grasslands. The results show that urbanisation and local habitat quality influence flower and pollinator communities. Urbanisation increases flowering plant abundance but decreases bee and butterfly species richness. Ground nesting resource availability and local vegetation structure boost hoverfly and butterfly visitation rates.
SCIENTIFIC REPORTS
(2023)
Article
Medicine, General & Internal
Nicolas A. Fraunhoffer, Aura I. Moreno Vega, Anala Meilerman Abuelafia, Marie Morvan, Emilie Lebarbier, Tristan Mary-Huard, Michael Zimmermann, Gwen Lomberk, Raul Urrutia, Nelson Dusetti, Yuna Blum, Remy Nicolle, Juan Iovanna
Summary: Using epigenomic inhibitors to reset gene expression patterns in pancreatic tumors shows promise in developing new therapies for pancreatic cancer.
Review
Oncology
Jerry Vriend, Mark W. Nachtigal
Summary: This study utilized public datasets to identify potential therapeutic targets in high-grade serous ovarian cancer by analyzing genes encoding proteins of the ubiquitin proteasome system. The differential expression of genes encoding ubiquitin ligases, ubiquitin ligase adaptors, and Cullin Ring Ligase (CRL) adaptors suggests their potential as novel therapeutic targets. The findings also indicate the involvement of CRLs in HGSOC and highlight the importance of ubiquitin proteasome pathway components in this type of cancer.
Article
Oncology
Ha T. N. Nguyen, Haoliang Xue, Virginie Firlej, Yann Ponty, Melina Gallopin, Daniel Gautheret
Summary: RNA-seq data are increasingly used to derive prognostic signatures for cancer outcome prediction, and a limitation of current predictors is their reliance on reference gene annotations. A recent study compared conventional and reference-free signatures in risk and relapse prediction of prostate cancer, finding that reference-free classifiers may be a promising strategy for identifying novel prognostic RNA biomarkers. Both gene-based and k-mer based classifiers had high performances for risk prediction, but reference-free signatures included unique sequences not found in gene-based signatures.
Article
Pharmacology & Pharmacy
Mahmoud Ahmed, Deok Ryong Kim
Summary: The study found that gene expression variations in cancer cells make them vulnerable to drug perturbations, especially at gene expression extremes. Additionally, specialized cancer cells are sensitive to compounds that perturb their specific tasks.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Olivia M. Marx, Marc M. Mankarious, Melanie A. Eshelman, Wei Ding, Walter A. Koltun, Gregory S. Yochum
Summary: Despite a global decrease in colorectal cancer (CRC) incidence, the prevalence of early-onset colorectal cancer (EOCRC) has steadily increased. The understanding of genetic and molecular basis of EOCRC is limited. This study identified increased expression of c-MYC proto-oncogene (MYC) and its downstream targets in tumor samples. Elevated expression of the PVT1 long-non-coding RNA (lncRNA) was also detected. The findings suggest that deregulated MYC contributes to CRCs in younger patients.
Article
Multidisciplinary Sciences
Marco Bolis, Daniela Bossi, Arianna Vallerga, Valentina Ceserani, Manuela Cavalli, Daniela Impellizzieri, Laura Di Rito, Eugenio Zoni, Simone Mosole, Angela Rita Elia, Andrea Rinaldi, Ricardo Pereira Mestre, Eugenia D'Antonio, Matteo Ferrari, Flavio Stoffel, Fernando Jermini, Silke Gillessen, Lukas Bubendorf, Peter Schraml, Arianna Calcinotto, Eva Corey, Holger Moch, Martin Spahn, George Thalmann, Marianna Kruithof-de Julio, Mark A. Rubin, Jean-Philippe P. Theurillat
Summary: The study integrates a transcriptomics atlas of prostate cancer and validates it with preclinical models and single-cell RNA-seq, revealing the role of EZH2 and macrophage polarization in tumour progression.
NATURE COMMUNICATIONS
(2021)
Article
Plant Sciences
Alejandro Aragon-Raygoza, Luis Herrera-Estrella, Alfredo Cruz-Ramirez
Summary: Gene expression analysis in Ceratopteris richardii revealed enriched functional categories related to histogenesis and cell division in the root tip transcriptional program, and conserved expression in the root meristem. However, divergence was observed in genes involved in root cap development.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Francisco Medina-Paz, Luis Herrera-Estrella, Martin Heil
Summary: This study explores the rhizosphere and endosphere bacterial communities of the common bean plant throughout its growth stages, and finds that the rhizosphere communities are more diverse than the endosphere communities. The composition and abundance of microbial taxa vary at different stages of plant growth.
Article
Multidisciplinary Sciences
Jinlei Han, Damar Lopez-Arredondo, Guangrun Yu, Yankun Wang, Baohua Wang, Sarah Brooke Wall, Xin Zhang, Hui Fang, Alfonso Carlos Barragan-Rosillo, Xiaoping Pan, Yanqin Jiang, Jingbo Chen, Hui Zhang, Bao-Liang Zhou, Luis Herrera-Estrella, Baohong Zhang, Kai Wang
Summary: This study examined the genome-wide DNase I-hypersensitive site (DHS) and its variations in domesticated allotetraploid cotton, revealing the interplay among transposable elements, cis-regulatory elements, and histone modifications during polyploidization. These findings advance our understanding of regulatory architecture in plants.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Plant Sciences
Francisco Gabriel Perez-Zavala, Karina Atriztan-Hernandez, Paulina Martinez-Irastorza, Araceli Oropeza-Aburto, Damar Lopez-Arredondo, Luis Herrera-Estrella
Summary: Titanium has various beneficial effects in plants, such as enhanced nutrient uptake, resistance to pathogens and abiotic stresses. Through RNA-seq and ionomics analysis, this study reveals that titanium activates abscisic acid and salicylic acid signaling pathways in plants, leading to enhanced resistance to drought, high salinity, and infection with Botrytis cinerea, as well as improved nutrient status.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biotechnology & Applied Microbiology
Ricardo A. Chavez A. Montes, Mauricio Ulloa, Tammy Biniashvili, Arik Zackay, Nir Kfir, Damar Lopez-Arredondo, Luis Herrera-Estrella
Summary: This study reports a high-quality genome assembly and annotation of Pima-S6 cotton and compares it with other Gossypium genome assemblies at the chromosome and protein level. The results reveal important differences in chromosome structure and annotated protein content between Pima-S6 and other G. barbadense assemblies, as well as across Gossypium assemblies in general. Detailed synteny analyses demonstrate chromosomal rearrangements between Pima-S6 and other Pima genomes, raising questions about the true chromosome structure of Gossypium barbadense genomes.
Article
Plant Sciences
Feifei Yi, Aosong Song, Kai Cheng, Jinlei Liu, Chenxiao Wang, Lili Shao, Shuang Wu, Ping Wang, Jiaxuan Zhu, Zhilin Liang, Ying Chang, Zongyan Chu, Chaowei Cai, Xuebin Zhang, Pei Wang, Aimin Chen, Jin Xu, David J. Burritt, Luis Herrera-Estrella, Lam-Son Phan Tran, Weiqiang Li, Yingfan Cai
Summary: Strigolactones enhance cotton resistance to Verticillium wilt by interacting with other hormone signaling pathways and regulating hormone homeostasis through a negative feedback loop. Strigolactone is involved in Verticillium wilt resistance in cotton. The analog rac-GR24 enhances cotton resistance to Verticillium wilt, while the biosynthesis inhibitor TIS108 decreases resistance.
Editorial Material
Plant Sciences
Nidhi Kandhol, Vijay Pratap Singh, Luis Herrera-Estrella, Lam-Son Phan Tran, Durgesh Kumar Tripathi
Summary: Genetic modification enables the alteration of important traits in crops, but it involves costly and laborious procedures to modify the genetic background. Thagun et al. recently introduced a nanocarrier-based foliar spray technique that allows the translocation of bioactive molecules into plant cells without the need for introducing transgenes, thus enabling the engineering of important traits.
TRENDS IN PLANT SCIENCE
(2023)
Article
Multidisciplinary Sciences
Nayelli Marsch-Martinez, J. Irepan Reyes-Olalde, Antonio Chalfun-Junior, Marian Bemer, Yolanda Duran-Medina, Juan Carlos Ochoa-Sanchez, Herenia Guerrero-Largo, Humberto Herrera-Ubaldo, Jurriaan Mes, Alejandra Chacon, Rocio Escobar-Guzman, Andy Pereira, Luis Herrera-Estrella, Gerco C. Angenent, Luis Delaye, Stefan de Folter
Summary: Evolution has been thought to be a conservative process, but new genes originating from non-genic sequences challenge this view. In this study, a potential de novo-originated gene called TWT1 was identified in Arabidopsis thaliana, which can modify microtubule arrangement and affect plant growth and development.
Article
Biotechnology & Applied Microbiology
Long Wang, Xianqing Jia, Lei Xu, Jiahong Yu, Suna Ren, Yujie Yang, Kaibin Wang, Damar Lopez-Arredondo, Luis Herrera-Estrella, Hans Lambers, Keke Yi
Summary: As a finite and non-renewable resource, phosphorus is crucial for crop growth and food production. However, agricultural use and associated loss of phosphorus to the aquatic environment are causing environmental pollution and threatening global food security. Microalgae-based biological phosphorus recovery is considered a promising solution, but the low accumulation capacity of algae restricts its application. By manipulating genes involved in cellular phosphorus accumulation and signaling, researchers have tripled the phosphorus storage capacity of algae and significantly improved its phosphorus recovery efficiency from wastewater. This genetic engineering approach has the potential to enhance phosphorus uptake and accumulation in microalgae, and accelerate the application of algae for phosphorus recovery and closing the phosphorus cycle.
PLANT BIOTECHNOLOGY JOURNAL
(2023)
Article
Biochemical Research Methods
E. Adriana Ceniceros-Ojeda, Corina Hayano-Kanashiro, Octavio Martinez, M. Humberto Reyes-Valdes, Fernando Hernandez-Godinez, Jose Luis Pons-Hernandez, June Simpson
Summary: Based on the analysis of 3204 maize samples from central and northern regions of Mexico, this report confirms the presence of transgenic maize in all samples, with higher prevalence in the northern region.
TRANSGENIC RESEARCH
(2023)
Article
Plant Sciences
Alan Flores-Diaz, Christian Escoto-Sandoval, Felipe Cervantes-Hernandez, Jose J. Ordaz-Ortiz, Corina Hayano-Kanashiro, Humberto Reyes-Valdes, Ana Garces-Claver, Neftali Ochoa-Alejo, Octavio Martinez
Summary: Gene co-expression networks are powerful tools for understanding functional interactions between genes. We present an algorithm to construct gene functional networks for genes annotated in a given biological process or other aspects of interest. The algorithm is based on the correlation of time expression profiles and ensures robustness by repeatedly finding gene expression relations in independent genotypes. Additionally, we propose an algorithm to identify transcription factor candidates for regulating hub genes within the network.
Editorial Material
Plant Sciences
Nidhi Kandhol, Sangeeta Pandey, Vijay Pratap Singh, Luis Herrera-Estrella, Jose Lopez Bucio, Lam-Son Phan Tran, Durgesh Kumar Tripathi
TRENDS IN PLANT SCIENCE
(2023)
Editorial Material
Plant Sciences
Valeria Flores Tinoco, Luis Herrera-Estrella, Damar Lopez-Arredondo
Summary: Only two primary photosynthetic endosymbiosis are known to have occurred throughout evolution, resulting in the formation of Archaeplastida and Paulinella spp. The fundamental questions surrounding primary endosymbiosis remain unanswered, but recent advancements in chimeric photosynthetic life-forms offer new opportunities for studying them. Cournoyer et al. have successfully established artificial photosynthetic endosymbiosis between yeast and cyanobacteria.
TRENDS IN PLANT SCIENCE
(2023)
Article
Biology
Gerardo Alejo-Jacuinde, Hector-Rogelio Najera-Gonzalez, Ricardo A. Chavez A. Montes, Cristian D. Gutierrez D. Reyes, Alfonso Carlos Barragan-Rosillo, Benjamin Perez Sanchez, Yehia Mechref, Damar Lopez-Arredondo, Lenin Yong-Villalobos, Luis Herrera-Estrella
Summary: This study presents a chromosome-level reference genome for chia and analyzes the transcriptome, proteome, and metabolome to uncover the molecular basis of the unique characteristics of chia seeds. Chia is an emerging crop with functional food properties, but the genetic basis for traits like seed mucilage and polyphenol content remains unclear.
COMMUNICATIONS BIOLOGY
(2023)
Meeting Abstract
Plant Sciences
L. D'Agostino, L. Yong-Villalobos, L. Herrera-Estrella, G. Patil
IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-PLANT
(2022)
