Article
Chemistry, Medicinal
Jing-Juan Li, Hong-Tao Zhu, Komila Alibekovna Eshbakova, Man Zhang, Dong Wang, Ying-Jun Zhang
Summary: Four new phenolic compounds were isolated from the roots of Rumex dentatus L., including two naphthalenes, one chromone, and one xanthone. Compound 1 showed moderate antifungal activity against Epidermophyton floccosum.
Article
Genetics & Heredity
Suping Zhang, Bingao Guo, Sheqi He, Yanxia He
Summary: Rumex dentatus L. is a flowering plant with promising therapeutic effects, and the sequence and gene composition of its chloroplast genome were revealed and analyzed in this study.
MITOCHONDRIAL DNA PART B-RESOURCES
(2022)
Article
Biochemistry & Molecular Biology
Daniel M. Koenemann, Logan Kistler, Janelle M. Burke
Summary: The genus Rumex L. provides a unique system for investigating the evolution of sex determination and molecular rate. A plastome phylogeny for 34 species of Rumex was constructed, revealing that "docks" are monophyletic while "sorrels" are not. The docks show remarkably low nucleotide diversity, indicating recent diversification in this group.
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2023)
Review
Chemistry, Medicinal
Jing-Juan Li, Yong-Xiang Li, Na Li, Hong-Tao Zhu, Dong Wang, Ying-Jun Zhang
Summary: This review investigates the global distribution and pharmacological properties of Rumex species, revealing their potential as a medicinal source with antibacterial, anti-inflammatory, antitumor, and antioxidant activities. Rumex species have the potential to become an important source of clinical medicine in the future.
NATURAL PRODUCTS AND BIOPROSPECTING
(2022)
Review
Plant Sciences
Sandra Kelle Souza Macedo, Katia Simoni Bezerra Lima, Naiane Darklei dos Santos Silva, Sirley Sharliny Gomes Campos, Bruna Rodrigues Araujo, Jackson Roberto Guedes da Silva Almeida, Larissa Araujo Rolim, Xirley Pereira Nunes
Summary: Triplaris is an important genus of medicinal plants in South America, traditionally used to treat diseases like malaria. Research on the traditional uses, phytochemistry, and biological activities of Triplaris is mainly conducted in Brazil, Peru, and Bolivia. Flavonols are the main class of secondary metabolites found in Triplaris.
JOURNAL OF ETHNOPHARMACOLOGY
(2021)
Article
Multidisciplinary Sciences
Matthias Suter, Julie Klotzli, Deborah Beaumont, Ales Kolmanic, Robert Leskovsek, Urs Schaffner, Jonathan Storkey, Andreas Luscher
Summary: Rumex obtusifolius is a problematic weed that decreases yield and nutritional value of forage in temperate grasslands worldwide. The soil seed bank of R. obtusifolius is affected by management and soil properties. Variables such as soil pH, silt content, land-use intensity, and aboveground density of R. obtusifolius plants explain the variation in the soil seed bank.
Article
Plant Sciences
Kirstie D. Grant, Daniel Koenemann, Janet Mansaray, Aisha Ahmed, Hamid Khamar, Jalal El Oualidi, Janelle M. Burke
Summary: This study presents a plastid phylogeny of 67 species of Rumex, resolving their relationships and subgenus classification. It found that dioecious species are grouped within the same major clade, suggesting a closer relationship among species with different reproductive systems.
Article
Plant Sciences
Yunzhi Lin, Chen Ye, Xingzhu Li, Qinyao Chen, Ying Wu, Feng Zhang, Rui Pan, Sijia Zhang, Shuxia Chen, Xu Wang, Shuo Cao, Yingzhen Wang, Yi Yue, Yongsheng Liu, Junyang Yue
Summary: A high-quality genome is important for studying functional, evolutionary, and comparative genomics. However, there is a lack of bioinformatic tools for automatically constructing and characterizing T2T genomes. The quarTeT toolkit addresses this issue by providing user-friendly modules for genome assembly and characterization.
HORTICULTURE RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Omkar Suhas Vinchure, Kurt Whittemore, Deependra Kushwah, Maria A. Blasco, Ritu Kulshreshtha
Summary: miR-490 targets multiple genes to regulate telomere maintenance in GBM, exerting tumor suppressive effects, impacting stemness and senescence, activating DNA damage response, and potentially holding therapeutic significance in GBM treatment.
CELLULAR AND MOLECULAR LIFE SCIENCES
(2021)
Editorial Material
Biochemical Research Methods
Yafei Mao, Guojie Zhang
Summary: The release of the first telomere-to-telomere human genome sequence is a significant milestone in human genomics research, offering potential insights for evolutionary genomics. This article describes the advances of this new genome assembly and discusses the challenges of applying this sequencing strategy to various extant species.
Article
Biochemistry & Molecular Biology
Jae Young Choi, Liliia R. Abdulkina, Jun Yin, Inna B. Chastukhina, John T. Lovell, Irma A. Agabekian, Pierce G. Young, Samsad Razzaque, Dorothy E. Shippen, Thomas E. Juenger, Eugene Shakirov, Michael D. Purugganan
Summary: Telomeres are repetitive DNA sequences at chromosome ends that protect them during cell division. Natural variation in telomere length was found in Arabidopsis thaliana, rice, and maize, with longer telomeres associated with faster flowering time. This suggests chromosomal structure may be an adaptive trait linked to plant life-history strategies.
Review
Biochemistry & Molecular Biology
Francesca M. Piras, Eleonora Cappelletti, Marco Santagostino, Solomon G. Nergadze, Elena Giulotto, Elena Raimondi
Summary: The centromere is a crucial locus for proper chromosome segregation. Although its function is conserved and epigenetically regulated, centromeric DNA sequences are composed of rapidly evolving satellite DNA. The recent discovery of functional satellite-free centromeres in certain animal and plant species has provided new insights into the epigenetic nature of centromeres and their evolutionary requirements.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Genetics & Heredity
Jian Chen, Zijian Wang, Kaiwen Tan, Wei Huang, Junpeng Shi, Tong Li, Jiang Hu, Kai Wang, Chao Wang, Beibei Xin, Haiming Zhao, Weibin Song, Matthew B. Hufford, James C. Schnable, Weiwei Jin, Jinsheng Lai
Summary: This research achieved a complete telomere-to-telomere genome assembly of the maize Mo17 inbred line using deep coverage long-read sequencing technologies. The assembly revealed the structural features of the highly complex maize genome, particularly the repetitive regions.
Article
Biotechnology & Applied Microbiology
Sarah J. Kennedy, Celine Grace F. Atkinson, Brooke R. Tomlinson, Lauren Hammond, Prahathees Eswara, Bill J. Baker, Lindsey N. Shaw
Summary: The concept of bacterial dark matter arises from the inability to culture most microbes, with the domestication of a previously uncultured species revealing genomic atrophy and mutations correlated with enhanced growth rates but diminished amino acid metabolism capacity. Wild-type strains showed greater antibacterial potential due to extensive mutational attrition, suggesting that the shedding of genomic flexibility in a dynamic environment allowed for newfound cultivated amenability.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2021)
Article
Dermatology
Uppala Radhakrishna, Uppala Ratnamala, Devendrasinh D. Jhala, Lavanya V. Uppala, Aaren Vedangi, Nazia Saiyed, Maulikkumar Patel, Nikita Vadsaria, Sushma R. Shah, Rakesh M. Rawal, Santo R. Mercuri, Dennis McGonagle, Gregor B. E. Jemec, Giovanni Damiani
Summary: This study investigates the potential use of TRG methylomes as biomarkers in HS and identifies differentially methylated CpG sites associated with HS. It also suggests that the disruption of TRGs leads to telomere shortening and is associated with HS progression and increased risk of various diseases.
JOURNAL OF THE EUROPEAN ACADEMY OF DERMATOLOGY AND VENEREOLOGY
(2023)
Article
Evolutionary Biology
Francisca Robles Rodriguez, Roberto de la Herran, Rafael Navajas-Perez, Belen Cano-Roldan, Pedro Juan Sola-Campoy, Jerson Alexander Garcia-Zea, Carmelo Ruiz Rejon
JOURNAL OF HEREDITY
(2017)
Article
Evolutionary Biology
Juceli Gonzalez Gouveia, Ivan Rodrigo Wolf, Laurival Antonio Vilas-Boas, John Seymour Heslop-Harrison, Trude Schwarzacher, Ana Lucia Dias
JOURNAL OF HEREDITY
(2017)
Article
Plant Sciences
Adel Sepsi, James D. Higgins, John S. (Pat) Heslop-Harrison, Trude Schwarzacher
Article
Multidisciplinary Sciences
Rubar Hussein M. Salih, Lubos Majesky, Trude Schwarzacher, Richard Gornall, Pat Heslop-Harrison
Article
Genetics & Heredity
Mercedes Ruiz-Estevez, Mohammed Bakkali, Ruben Martin-Blazquez, Manuel A. Garrido-Ramos
Review
Genetics & Heredity
Manuel A. Garrido-Ramos
Article
Genetics & Heredity
Sarbast Ihsan Mustafa, Trude Schwarzacher, J. S. Heslop-Harrison
MITOCHONDRIAL DNA PART A
(2018)
Review
Cell Biology
Adel Sepsi, Trude Schwarzacher
JOURNAL OF CELL SCIENCE
(2020)
Article
Plant Sciences
Nicola Schmidt, Kathrin M. Seibt, Beatrice Weber, Trude Schwarzacher, Thomas Schmidt, Tony Heitkam
Summary: The study on EPRVs within the sugar beet genome reveals their variability in structure, sequence, and distribution, occupying a small fraction of the genome. Additionally, it was found that the EPRVs are present on different chromosomes, associated with heterochromatin, centromeres, and satellite DNAs, and are also found in genomes of related wild species.
Article
Genetics & Heredity
Mohammed Bakkali, Ruben Martin-Blazquez, Mercedes Ruiz-Estevez, Manuel A. Garrido-Ramos
Summary: The sporophyte transcriptome of Killarney fern was sequenced, revealing the species' genome characteristics and providing important data for evolutionary studies. The analysis offered insights into genes involved in key functions and genetic control of plant development, stress response, and transcription factors. Overall, this study represents a significant step towards understanding gene expression in ferns and land plants.
Article
Genetics & Heredity
Donald T. Stewart, Brent M. Robicheau, Noor Youssef, Manuel A. Garrido-Ramos, Emily E. Chase, Sophie Breton
Summary: Studies have found additional putative sperm transmission element (STE) signatures in the large unassigned regions of various marine clams and freshwater mussels with doubly uniparental inheritance (DUI), indicating potential implications for understanding the origin of DUI in ancestral bivalve mollusks and suggesting future in vitro and in silico studies to further refine our understanding of this unusual mtDNA inheritance system.
Article
Plant Sciences
Paulina Tomaszewska, Maria S. Vorontsova, Stephen A. Renvoize, Sarah Z. Ficinski, Joseph Tohme, Trude Schwarzacher, Valheria Castiblanco, Jose J. de Vega, Rowan A. C. Mitchell, J. S. (Pat) Heslop-Harrison
Summary: The study focused on characterizing the genomes of diploid and polyploid Urochloa species, identifying repetitive DNA and genome composition. The research found complex genome structures with multiple ploidies and compositions, suggesting no clear geographical patterns. A new nomenclature for genomes was proposed, along with a model of evolution at the whole-genome level and support for narrow species concepts within the Urochloa genus.
Article
Biochemistry & Molecular Biology
Noorhariza Mohd Zaki, Trude Schwarzacher, Rajinder Singh, Maria Madon, Corey Wischmeyer, Nordiana Hanim Mohd Nor, Muhammad Azwan Zulkifli, J. S. (Pat) Heslop-Harrison
Summary: The study developed oligonucleotide-based chromosome-specific probes that were anchored to chromosome arms in oil palm, establishing a chromosome identification system. These probes were also able to identify individual homoeologous chromosome regions in related palm species, showing the comparative organization and evolution of genomes within Arecaceae.
CHROMOSOME RESEARCH
(2021)
Article
Agriculture, Dairy & Animal Science
Claudio A. Jimenez-Ruiz, Roberto de la Herran, Francisca Robles, Rafael Navajas-Perez, Ismael Cross, Laureana Rebordinos, Carmelo Ruiz-Rejon
Summary: MicroRNAs play crucial roles in regulating gene expression, and the miR-430 family is particularly important in early fish development. This study found that the miR-430 family emerged early in fish evolution, and all studied species have multiple copies of miR-430. In some early-diverged fish, three different versions of miR-430 were identified, but some groups seem to have lost some of these versions over time. These findings suggest the need for further research on the functions of different miR-430 versions and their potential impact on aquaculture.
Article
Biology
Ziwei Wang, Mathieu Rouard, Manosh Kumar Biswas, Gaetan Droc, Dongli Cui, Nicolas Roux, Franc-Christophe Baurens, Xue-Jun Ge, Trude Schwarzacher, Pat J. S. Heslop-Harrison, Qing Liu
Summary: We have successfully assembled a high-quality genome of Ensete glaucum and characterized the chromosomal rearrangements between E. glaucum and Musa species. This genome assembly provides a valuable resource for crop breeding and understanding environmental responses.