Fungi.guru : comparative genomic and transcriptomic resource for the fungi kingdom di Lim, Jolyn Jia Jia, Koh, Jace, Moo, Jia Rong, Villanueva, Erielle Marie Fajardo, Putri, Dhira Anindya, Lim, Yuen Shan, Seetoh, Wei Song, Mulupuri, Sriya, Ng, Janice Wan Zhen, Nguyen, Nhi Le Uyen, Reji, Rinta, Foo, Herman, Zhao, Margaret Xuan, Chan, Tong Ling, Rodrigues, Edbert Edric, Kairon, Ryanjit Singh, Hee, Ker Min, Chee, Natasha Cassandra, Low, Ann Don, Chen, Zoe Hui Xin, Lim, Shan Chun, Lunardi, Vanessa, Fong, Tuck Choy, Chua, Cherlyn Xin'Er, Koh, Kenny Ting Sween, Julca, Irene, Delli-Ponti, Riccardo, Ng, Jonathan Wei Xiong, Mutwil, Marek

“...We exemplify how our tool can elucidate the molecular function, biological process and cellular component of genes involved in various biological processes, by identifying a secondary metabolite pathway producing gliotoxin in Aspergillus fumigatus, the catabolic pathway of cellulose in Coprinopsis cinerea and the conserved DNA replication pathway in Fusarium graminearum and Pyricularia oryzae. ...”
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Viable but nonculturable state of yeast candida sp. strain LN1 induced by high phenol concentrations di Xie, Mengqi, Xu, Luning, Zhang, Rong, Zhou, Yan, Xiao, Yeyuan, Su, Xiaomei, Shen, Chaofeng, Sun, Faqian, Muhammad Zaffar Hashmi, Lin, Hongjun, Chen, Jianrong

“...Molecular analysis indicated that downregulated genes were related to the oxidative stress response, xenobiotic degradation, and carbohydrate and energy metabolism, whereas upregulated genes were related to RNA polymerase, amino acid metabolism, and DNA replication and repair. This report revealed that a pollutant-degrading yeast strain entered into the VBNC state under high concentrations of contaminants, providing new insights into its survival status and bioremediation potential under stress. ...”
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Study on catalytic properties of flap structure : specific endonuclease 1 and establishment of new platforms for screening its inhibitors di Ba, Sai

“...Flap structure-specific endonuclease 1 (FEN 1) is known to be essential for reproduction and development of eukaryotic cells. During DNA replication in cell division, a 5' flap structure is generated by polymerase 8. ...”
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Comparative transcriptomics unravels prodigiosin's potential cancer-specific activity between human small airway epithelial cells and lung adenocarcinoma cells di Davient, Bala, Ng, Jessica Pei Zhen, Xiao, Qiang, Li, Liang, Yang, Liang

“...In A549, genes associated in DNA replication were downregulated, while genes directly or indirectly associated in lipid and cholesterol biogenesis were upregulated. ...”
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Chromosomal instability-induced senescence potentiates cell non-autonomous tumourigenic effects di He, Qianqian, Au, Bijin, Kulkarni, Madhura, Shen, Yang, Lim, Kah. J., Maimaiti, Jiamila, Wong, Cheng. Kit., Luijten, Monique Nicole Helena, Chong, Han Chung, Lim, Elaine H., Rancati, Giulia, Sinha, Indrajit, Fu, Zhiyan, Wang, Xiaomeng, Connolly, John. E., Crasta, Karen Carmelina

“...Depletion of p53 reduced the number of senescent cells with concomitant increase in cells undergoing DNA replication. Characterisation of these SASP factors demonstrated that they conferred paracrine pro-tumourigenic effects such as invasion, migration and angiogenesis both in vitro and in vivo. ...”
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Investigation of the effects of IGF-1 receptor blockade on chemoresistance of advanced melanoma di Ramcharan, R, Roger Ramcharan

“...Failure to resolve such alkylated bases results in DNA replication-associated double-strand breaks (DSBs). ...”

Phosphorylation of the human topoisomerase II protein di Fry, A, Fry, A. M.

“...<p>DNA topoisomerase II is an essential enzyme in eukaryotes and is required for many aspects of DNA metabolism including DNA replication, recombination, chromosome segregation and chromosome condensation. ...”

The three methyls: the function and therapeutic potential of histone H3K36 trimethylation di Pfister, SX

“...WEE1 inhibition selectively kills H3K36me3-deficient cells by inhibiting DNA replication, and subsequent fork stalling results in MUS81 endonuclease-dependent DNA damage and cell death. ...”

Targeting interstrand crosslink repair to improve chemotherapeutic strategies di Castle, L

“...</p> <p>Previous studies have suggested ICL repair occurs chiefly in S-phase when DNA replication forks collide with ICLs. However, recent research in budding yeast, using Xenopus cell-free extracts and using genetic reporter assays in mammalian cells suggests that ICL repair can occur in the G1 phase of the cell cycle via the nucleotide excision repair (NER) and translesional synthesis (TLS) pathways. ...”

Investigating the recombinational response to replication fork barriers in fission yeast di Jalan, M

“...<p>Timely completion of DNA replication in each cell cycle is crucial for maintaining genomic integrity. ...”

Direct interfacial Y[subscript 731] oxidation in α[subscript 2] by a photoβ[subscript 2] subunit of E. coli class Ia ribonucleotide reductase di Song, David Y., Pizano, Arturo A., Holder, Patrick G., Stubbe, JoAnne, Nocera, Daniel G.

“...Proton-coupled electron transfer (PCET) is a fundamental mechanism important in a wide range of biological processes including the universal reaction catalysed by ribonucleotide reductases (RNRs) in making de novo, the building blocks required for DNA replication and repair. These enzymes catalyse the conversion of nucleoside diphosphates (NDPs) to deoxynucleoside diphosphates (dNDPs). ...”
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Mechanistic investigations of the radical transport pathway in fluorotyrosine-substituted class Ia ribonucleotide reductases di Ravichandran, Kanchana

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The NORAD lncRNA assembles a topoisomerase complex critical for genome stability di Munschauer, Mathias, Nguyen, Celina T., Sirokman, Klara, Hartigan, Christina R., Hogstrom, Larson, Engreitz, Jesse Michael, Ulirsch, Jacob C., Fulco, Charles P., Subramanian, Vidya, Chen, Jenny, Schenone, Monica, Guttman, Mitchell, Carr, Steven A, Lander, Eric Steven

“...We show that NORAD interacts with proteins involved in DNA replication and repair in steady-state cells and localizes to the nucleus upon stimulation with replication stress or DNA damage. ...”
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Mechanistic investigations of the radical initiation pathway of class I ribonucleotide reductase from Escherichia coli di Yee, Cyril S. (Cyril See-Min), 1974-

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Exocyclic Carbons Adjacent to the N[superscript 6] of Adenine are Targets for Oxidation by the Escherichia coli Adaptive Response Protein AlkB di Li, Deyu, Delaney, James C., Page, Charlotte M., Yang, Xuedong, Chen, Alvin S., Wong, Cintyu, Essigmann, John M., Drennan, Catherine L

“...The observation of oxidation of a carbon at N[superscript 6] in EA prompted us to evaluate N[superscript 6]-methyladenine (m6A), an important epigenetic signal for DNA replication and many other cellular processes, as an AlkB substrate in DNA. ...”
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Bacillus subtilis Class Ib Ribonucleotide Reductase Is a Dimanganese(III)-Tyrosyl Radical Enzyme di Zhang, Yan, Stubbe, JoAnne

“...Bacillus subtilis class Ib ribonucleotide reductase (RNR) catalyzes the conversion of nucleotides to deoxynucleotides, providing the building blocks for DNA replication and repair. It is composed of two proteins: α (NrdE) and β (NrdF). β contains the metallo-cofactor, essential for the initiation of the reduction process. ...”
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Insight into the Mechanism of Inactivation of Ribonucleotide Reductase by Gemcitabine 5′-Diphosphate in the Presence or Absence of Reductant di Artin, Erin, Wang, Jun, Lohman, Gregory J. S., Yokoyama, Kenichi, Yu, Guixue, Bar, Galit, Stubbe, JoAnne, Griffin, Robert Guy

“...Gemcitabine 5′-diphosphate (F[subscript 2]CDP) is a potent inhibitor of ribonucleotide reductases (RNRs), enzymes that convert nucleotides (NDPs) to deoxynucleotides and are essential for DNA replication and repair. The Escherichia coli RNR, an α2β2 complex, when incubated with 1 equiv of F[subscript 2]CDP catalyzes the release of two fluorides and cytosine concomitant with enzyme inactivation. ...”
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Machine learning-based prediction of DNA G-quadruplex folding topology with G4ShapePredictor di Liew, Donn, Lim, Zi Way, Yong, Ee Hou

“...G4s play crucial roles in biological processes such as DNA repair, DNA replication, transcription and have thus emerged as biological targets in drug design. ...”
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Closing the genomic gaps of rat cytomegalovirus ALL-03 in genome scaffold di Balakrishnan, Krishnan Nair

“...Out of 123 CDS, 46 CDS (36.2%) were grouped into 8 functional classes such as capsid, glycoprotein, tegument, DNA replication, DNA packaging, nuclear egress, immune evasion and regulatory. ...”
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Genomic analysis of oceanic cyanobacterial myoviruses compared with T4-like myoviruses from diverse hosts and environments di Huang, Katherine H., Ignacio-Espinoza, Julio C., Berlin, Aaron M., Kelly, Libusha, Weigele, Peter, DeFrancesco, Alicia S., Kern, Suzanne Elizabeth, Thompson, Luke Richard, Young, Sarah, Yandava, Chandri, Fu, Ross, Krastins, Bryan, Chase, Michael, Sarracino, David, Henn, Matthew R., Chisholm, Sallie (Penny), Sullivan, Matthew, Osburne, Marcia Susan

“...A core genome of 38 virion construction and DNA replication genes was observed in all 26 genomes, with 32 and 25 additional genes shared among the non-cyanophage and cyanophage subsets, respectively. ...”
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