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Agriculture, Dairy & Animal Science
Shou-Dong Zhang, Gong-Hua Lin, Ji-Ru Han, Yu-Wei Lin, Feng-Qing Wang, De-Chen Lu, Jiu-Xiang Xie, Jin-Xin Zhao
Summary: This study compared the digestive tracts of plateau zokor and laboratory rats, revealing that the digestive tract of plateau zokor is longer and heavier, particularly in the large intestine and cecum. Microbiome analysis showed that bacteria associated with cellulose degradation were enriched in laboratory rats. However, both plateau zokor and laboratory rats had similar functions in carbohydrate metabolism and energy metabolism.
Article
Biochemistry & Molecular Biology
Nikita S. Vassetzky, Olga R. Borodulina, Ilia G. Ustyantsev, Sergei A. Kosushkin, Dmitri A. Kramerov
Summary: This study thoroughly examines three subfamilies of the SINE family, detailing their distinctions based on relatively long indels. The age and activity of SINE subfamilies play a key role in their evolution, while the investigation of the shortest pol III transcription terminators reveals that functional terminators are more likely to be preserved in younger copies.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Multidisciplinary Sciences
Emily Roycroft, Anna J. MacDonald, Craig Moritz, Adnan Moussalli, Roberto Portela Miguez, Kevin C. Rowe
Summary: Australia has the highest historically recorded rate of mammalian extinction, especially among rodents. Through genomic data and museum specimens, researchers reveal genetic diversity, evolutionary history, and evidence of rapid extinction in extinct species.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Virology
Jana Tesikova, Jarmila Krasova, Joelle Gouy de Bellocq
Summary: Angola is a hotspot for mammarenavirus diversity, with a study revealing the presence of various mammarenaviruses in rodents, especially in Namaqua rock rats. This high virus diversity was found in a limited host sample size and relatively small geographical area.
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Genetics & Heredity
Katarzyna Kozyra, Tomasz M. Zajac, Hermann Ansorge, Heliodor Wierzbicki, Magdalena Moska, Michal Stanko, Pavel Stopka
Summary: By sequencing mitochondrial cyt b from striped field mouse individuals and comparing genetic analyses with historical distribution models and environmental changes, the study revealed that past demographic changes were influenced by environmental changes and glacial expansions. The data also showed correlations between sea level changes and the genetic structure of the eastern Asian clade C3. Overall, the results support the idea that local populations mixed over time due to environmental and climatic changes during the Pleistocene.
Article
Geography, Physical
Lazaro Willian Vinola-Lopez, Jonathan I. Bloch, Juan N. Almonte Milan, Michelle J. LeFebvre
Summary: Hispaniola, considered the cradle of rodent evolution and diversification in the Greater Antilles, has a fossil record of extinct and extant rodent species. This study provides new radiocarbon dates for endemic rodents, revealing that the extinction of most rodent species on Hispaniola occurred during the late Holocene, after the arrival of human settlements and colonization. The findings suggest that both climate change and human activities played a role in the extinction of rodents on the island.
QUATERNARY SCIENCE REVIEWS
(2022)
Article
Biochemistry & Molecular Biology
Talia Kustin, Adi Stern
Summary: RNA viruses exhibit a trend towards A-rich coding sequences during evolution, mainly influenced by selection pressures, which contribute to the advancement of genome evolution. Research findings suggest that single-stranded RNA viruses undergo selective pressure resulting in the presence of A-rich coding sequences in their genomes.
MOLECULAR BIOLOGY AND EVOLUTION
(2021)
Article
Biology
Sergei A. Kosushkin, Ilia G. Ustyantsev, Olga R. Borodulina, Nikita S. Vassetzky, Dmitri A. Kramerov
Summary: The study found that the Can SINEs, short retrotransposons present in the genomes of dogs and other canids, are highly active in amplification, especially in dog breeds. Through analysis of specific signals and transcription mechanisms, it was discovered that Can SINEs can alternate between amplification with and without polyadenylation. These findings are important for understanding the mechanisms of transposon replication and genome function.
Article
Microbiology
Mayara Cristhine de Oliveira Santana, Khaled Chourabi, Lilian Motta Cantanhede, Elisa Cupolillo
Summary: This study investigates the specificity of Leishmania RNA Virus 1 (LRV1) in relation to Leishmania (Viannia) species hosts. LRV1 was found to be associated with increased severity of Tegumentary Leishmaniasis (TL) symptoms and unfavorable clinical outcomes. The presence of LRV1 in various Leishmania species suggests host specificity, and phylogenetic analysis supports the coevolution of LRV1 and Leishmania.
Editorial Material
Oncology
George A. Calin
Summary: The study reveals the functional interaction of intronic miRNAs and ncRNA within the FTX locus in colorectal cancer cells, showing a complex landscape that modulates key signaling pathways for cancer progression.
Article
Chemistry, Multidisciplinary
Michaela Egger, Raphael Bereiter, Stefan Mair, Ronald Micura
Summary: Nucleolytic ribozymes utilize general acid-base catalysis to perform phosphodiester cleavage. However, the general base knockout study on pistol ribozymes challenges the common view that γ-catalysis critically depends on the N1 moiety. The overall catalysis of pistol ribozymes is made up by three catalytic factors (α, β, γ).
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2022)
Article
Pharmacology & Pharmacy
Liang Qi, Jiayun Zhang, Ying Gao, Pin Gong, Chengyuan Liang, Yao Su, Qiao Zeng, Yafeng Zhang
Summary: The study developed a direct and efficient Rev-RRE inhibitor screening model using a single rhodamine B labeled Rev model peptide. The model was validated using fluorescence indicator displacement assays and atomic force microscopy. The results demonstrated that RB-Rev can serve as a fluorescent probe for recognizing small ligands targeting RRE RNA.
JOURNAL OF PHARMACEUTICAL ANALYSIS
(2022)
Article
Agriculture, Dairy & Animal Science
Pablo Oyarzun-Ruiz, Richard S. Thomas, Adriana M. Santodomingo, Juan E. Uribe, Marlon M. Ardila, Diana M. Echeverry, Sebastian Munoz-Leal, Maria C. Silva-de la Fuente, Marco Loyola, Cristina J. Palma, Carlos Landaeta-Aqueveque, AnaLia Henriquez
Summary: Sarcocystidae is a family of protozoa that infects two hosts, an intermediate or paratenic host and a definitive host. A study conducted in Chile on rodents found three individuals infected with Sarcocystidae, belonging to the genera Sarcocystis, Besnoitia, and Toxoplasmatinae. Although it is unclear whether these findings indicate parasitism or accidental encounters, the genetic relationship suggests they are parasites of rodents.
Article
Multidisciplinary Sciences
Elena Menichelli, Bianca J. Lam, Yu Wang, Vivian S. Wang, Jennifer Shaffer, Katrina F. Tjhung, Badry Bursulaya, Truc Ngoc Nguyen, Todd Vo, Phillip B. Alper, Christopher S. McAllister, David H. Jones, Glen Spraggon, Pierre-Yves Michellys, John Joslin, Gerald F. Joyce, Jeff Rogers
Summary: There is growing interest in using small molecules to target disease-relevant RNAs in therapeutic intervention. However, the understanding of structure-activity relationships in pursuing RNA targets is limited. This study identified several unique compounds through high-throughput screening that bind to a well-studied RNA structure, the theophylline aptamer, with significantly higher affinity than theophylline itself. The atomic-resolution X-ray crystal structures of these compounds revealed the rigidity of the RNA binding pocket and the potential for other ligands to bind more tightly. These findings suggest that the same approaches used for protein drug discovery can also be applied to RNA.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Ecology
Renan Maestri, Andre L. Luza, Sandra M. Hartz, Thales R. O. de Freitas, Bruce D. Patterson
Summary: Investigations of phenotypic disparity across geography often ignore macroevolutionary processes. In this study, we represented distinct processes of phenotypic evolution underlying ecological disparity in geographical space. Our findings suggest a larger role for divergent natural selection in the Atlantic Forest, while the rest of South America shows constraints on phenotypic evolution.
Article
Genetics & Heredity
Anastasia P. Koval, Irina K. Gogolevskaya, Karina A. Tatosyan, Dmitri A. Kramerov
Article
Biochemistry & Molecular Biology
Olga R. Borodulina, Julia S. Golubchikova, Ilia G. Ustyantsev, Dmitri A. Kramerov
BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS
(2016)
Article
Genetics & Heredity
Karina A. Tatosyan, Dmitri A. Kramerov
Review
Biochemistry & Molecular Biology
I. G. Ustyantsev, J. S. Golubchikova, O. R. Borodulina, D. A. Kramerov
Article
Biochemistry & Molecular Biology
K. A. Tatosyan, A. P. Koval, I. K. Gogolevskaya, D. A. Kramerov
Article
Biotechnology & Applied Microbiology
Irina K. Gogolevskaya, Danil V. Stasenko, Karina A. Tatosyan, Dmitri A. Kramerov
Review
Ecology
D. A. Kramerov, N. S. Vassetzky
Article
Biochemistry & Molecular Biology
Nikita S. Vassetzky, Dmitri A. Kramerov
NUCLEIC ACIDS RESEARCH
(2013)
Article
Multidisciplinary Sciences
Anastasia P. Koval, Irina K. Gogolevskaya, Karina A. Tatosyan, Dmitri A. Kramerov
Article
Biochemistry & Molecular Biology
K. A. Tatosyan, A. P. Koval, D. A. Kramerov
Article
Biochemistry & Molecular Biology
I. G. Ustyantsev, K. A. Tatosyan, D. Stasenko, N. Y. Kochanova, O. R. Borodulina, D. A. Kramerov
Article
Biochemistry & Molecular Biology
Karina A. Tatosyan, Danil V. Stasenko, Anastasia P. Koval, Irina K. Gogolevskaya, Dmitri A. Kramerov
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2020)
Review
Biochemistry & Molecular Biology
K. A. Tatosyan, I. G. Ustyantsev, D. A. Kramerov
Article
Biochemistry & Molecular Biology
Ilia G. Ustyantsev, Olga R. Borodulina, Dmitri A. Kramerov
Summary: SINEs require specific beta and tau regions for polyadenylation of their transcripts, involving multiple proteins in the process, and utilize some proteins involved in RNA polymerase II transcription to polyadenylate their own RNA.
Article
Biochemistry & Molecular Biology
Nikita S. Vassetzky, Olga R. Borodulina, Ilia G. Ustyantsev, Sergei A. Kosushkin, Dmitri A. Kramerov
Summary: This study thoroughly examines three subfamilies of the SINE family, detailing their distinctions based on relatively long indels. The age and activity of SINE subfamilies play a key role in their evolution, while the investigation of the shortest pol III transcription terminators reveals that functional terminators are more likely to be preserved in younger copies.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Genetics & Heredity
Xiangge Meng, Chengping Li, Yu Hei, Xiang Zhou, Guoli Zhou
Summary: The study used IVT-SAPAS sequencing to analyze the dynamic changes of APA sites during adipogenesis in bovine subcutaneous preadipocytes and intramuscular preadipocytes. The results showed that APA plays an important role in adipocyte differentiation, and UTR-APA switching genes have different trends, with intramuscular preadipocytes tending to use shorter 3'UTR for differentiation. TRIB3, WWTR1, and INSIG1 play important roles in intramuscular preadipocyte differentiation.
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Genetics & Heredity
S. Alizadeh, S. Khamse, N. Tajeddin, H. R. Khorram Khorshid, A. Delbari, M. Ohadi
Summary: This study identifies a specific genotype at a CG-rich trinucleotide short tandem repeat (STR) locus that is associated with late-onset neurocognitive disorders such as Alzheimer's disease (AD).
Article
Genetics & Heredity
Shougang Liu, Zhe Zhuang, Fanghua Liu, Xiuqing Yuan, Zeqiao Zhang, Xiaoqian Liang, Xinhui Li, Yongfeng Chen
Summary: This study investigated the effect and mechanism of RPL9 and TIFA in scalp psoriasis, and identified RPL9 as a potential therapeutic target for scalp psoriasis.
Article
Genetics & Heredity
Shiting Wang, Jiaqi Chen, Zhichao Jin, Ying Xing, Ruiping Wang
Summary: This study suggests a causal association between hair color and skin cancers, with light hair colors (red, blonde, and light brown) being associated with an increased risk and dark brown hair being associated with a decreased risk.
Article
Genetics & Heredity
Joseph Hawadak, Loick Pradel Kojom Foko, Rodrigue Roman Dongang Nana, Karmveer Yadav, Veena Pande, Aparup Das, Vineeta Singh
Summary: This study investigates the genetic diversity and natural selection of the Pfama-1 gene in Plasmodium falciparum isolates from Cameroon. The study finds a considerable nucleotide and haplotype diversity, as well as specific mutations in Cameroonian isolates. Positive diversifying selection and the identification of selected codon sites suggest the potential implication of these genetic variations in host immune pressure and parasite-binding complex modulation. The findings provide valuable baseline data for malaria vaccine design.
Article
Genetics & Heredity
Emily Biernat, Mansi Verma, Chhabi K. Govind
Summary: RSC is an essential ATP-dependent chromatin remodeling complex in Saccharomyces cerevisiae. It regulates nucleosome-depleted regions (NDRs) by sliding flanking nucleosomes away from NDRs. Depletion of RSC leads to nucleosome encroachment in NDRs and transcription initiation defects. The study compared the effects of catalytic-dead Sth1 and rapid depletion of Sth1 on transcription. Rapid depletion of Sth1 reduces recruitment of TBP and Pol II, while the catalytic-dead mutant exhibits a severe reduction in TBP binding but accumulates Pol II in coding regions. The results suggest a role for RSC in transcription elongation and termination processes.
Article
Genetics & Heredity
Yunxiao Wei, Yuhan Song, Muhammad Aamir Khan, Chengzhen Liang, Zhigang Meng, Yuan Wang, Sandui Guo, Rui Zhang
Summary: This study analyzed the GhTPP protein family in upland cotton for the first time and identified the important role of GhTPPA_2 in regulating sugar metabolism, improving soluble sugar accumulation, and drought stress tolerance.
Article
Genetics & Heredity
Yannan Geng, Rui Shao, Tiantong Xu, Lilong Zhang
Summary: A novel risk model based on SCUBE3, TNNC1, SPON1, SEPT12 and ULBP1 genes was developed for predicting PMOP risk, with higher risk score indicating higher risk of suffering from PMOP. Significant differences in signaling pathway activities were observed between the high-risk score group and the low-risk score group.
Article
Genetics & Heredity
Randy P. Williams, Corina Lesseur, Haoxiang Cheng, Qian Li, Maya Deyssenroth, Christopher D. Molteno, Ernesta M. Meintjes, Sandra W. Jacobson, Joseph L. Jacobson, Helen Wainwright, Ke Hao, Jia Chen, R. Colin Carter
Summary: The study suggests that heavy alcohol exposure during pregnancy may impact the proportion of fetal placental villi macrophages and increase the expression of inflammatory genes. Further research is needed to explore these effects and evaluate the potential functional roles of placental inflammation in FASD.
Article
Genetics & Heredity
Lvjing Luo, Lishuang Sun, Shu Li, Huiting Liu, Zhengyu Chen, Shi Huang, Yinyin Mo, Genliang Li
Summary: This study analyzed the expression of Ptpn1 and miR-124-3p in testicular tissues of mice and investigated their regulatory relationship. The results showed that Ptpn1 expression was up-regulated in adult mouse testis compared to juvenile mouse testis, while miR-124-3p expression showed an opposite pattern. Further analysis suggested that the down-regulation of miR-124-3p may contribute to the high expression of Ptpn1 in adult mouse testis.
Article
Genetics & Heredity
Gairui Li, Dan Zhao, Xiaolin Peng, Yashuang Zhao
Summary: MiRNA-22 shows potential as a candidate for early diagnosis of colorectal cancer (CRC). The study found higher miR-22 expression levels in the CRC and CRA groups, suggesting its potential as a biomarker for CRC early screening.
Article
Genetics & Heredity
Zhongqiu Zhu, Qianting Yang, Xiaoying Tian, Da Man, Jian Wang, Junfang Zhang, Bingshe Han
Summary: This study constructed a ceRNA network mediated by lncRNAs in cold-acclimated zebrafish ZF4 cells and revealed that upregulation of MSTRG3207 promotes apoptosis by sponging dre-miR-736 during cold acclimation.
Article
Genetics & Heredity
Weitao Chen, Denggao Xiang, Shang Gao, Shuli Zhu, Zhi Wu, Yuefei Li, Jie Li
Summary: Dam construction has negatively impacted the genetic diversity and structure of fish populations. This case study on the endangered Hemibagrus guttatus found low genetic diversity, high levels of inbreeding, and decreasing population size in fragmented populations. Genetic structure and differentiation were also observed, indicating the influence of dams on these fish populations.
Article
Genetics & Heredity
Pooja Singh, Debleena Guin, Bijay Pattnaik, Ritushree Kukreti
Summary: Through systematic literature review and meta-analysis, it was found that idiopathic pulmonary fibrosis is significantly associated with 222 polymorphisms in 118 genes. Four polymorphisms - rs35705950/MUC5B, rs2736100/TERT, rs2076295/DSP, and rs111521887/TOLLIP, exhibited substantial epidemiological evidence supporting their association with IPF risk.
Article
Genetics & Heredity
Jianping Zhang, Zhijun Cai, Fanzhe Feng, Yufeng Peng, Yi Cui, Yongiqing Xu
Summary: This study found that exosomes secreted by young BMSCs can promote the healing of tendon-bone interface after rotator cuff tears. These exosomes can improve extracellular matrix remodeling, osteogenic differentiation, angiogenesis, and stemness of tendon-derived stem cells (TDSCs). The exosomes from young BMSCs have better effects compared to those from aged BMSCs.