Recent insight into the advances and prospects of microbial lipases and their potential applications in industry by Eskandari, Azadeh, Thean, Chor Leow, Abdul Rahman, Mohd Basyaruddin, Oslan, Siti Nurbaya

“…This updated review presents new knowledge about various origins of microbial lipases, such as fungi, bacteria, and yeast. It highlights both the traditional and modern purification methods, including precipitation and chromatographic separation, the immunopurification technique, the reversed micellar system, the aqueous two-phase system (ATPS), and aqueous two-phase flotation (ATPF), moreover, delves into the diverse applications of microbial lipases across several industries, such as food, vitamin esters, textile, detergent, biodiesel, and bioremediation. …”

CRISPR-Cas9 knockout screen informs efficient reduction of the Komagataella phaffii secretome by Dalvie, Neil C., Lorgeree, Timothy R., Yang, Yuchen, Rodriguez-Aponte, Sergio A., Whittaker, Charles A., Hinckley, Joshua A., Clark, John J., Del Rosario, Amanda M., Love, Kerry R., Love, J. C.

“…Background The yeast Komagataella phaffii is widely used for manufacturing recombinant proteins, but secreted titers of recombinant proteins could be improved by genetic engineering. …”
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Antibody-directed evolution reveals a mechanism for enhanced neutralization at the HIV-1 fusion peptide site by Banach, Bailey B, Pletnev, Sergei, Olia, Adam S, Xu, Kai, Zhang, Baoshan, Rawi, Reda, Bylund, Tatsiana, Doria-Rose, Nicole A, Nguyen, Thuy Duong, Fahad, Ahmed S, Lee, Myungjin, Lin, Bob C, Liu, Tracy, Louder, Mark K, Madan, Bharat, McKee, Krisha, O’Dell, Sijy, Sastry, Mallika, Schön, Arne, Bui, Natalie, Shen, Chen-Hsiang, Wolfe, Jacy R, Chuang, Gwo-Yu, Mascola, John R, Kwong, Peter D, DeKosky, Brandon J

“…Here we evolve the FP-targeting antibody VRC34.01 in vitro to enhance FP-neutralization using site saturation mutagenesis and yeast display. Successive rounds of directed evolution by iterative selection of antibodies for binding to resistant HIV-1 strains establish a variant, VRC34.01_mm28, as a best-in-class antibody with 10-fold enhanced potency compared to the template antibody and ~80% breadth on a cross-clade 208-strain neutralization panel. …”
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Crystal structure of the FK506 binding domain of plasmodium falciparum FKBP35 in complex with FK506 by Kotaka, Masayo, Ye, Hong, Alag, Reema, Hu, Guangan, Bozdech, Zbynek, Preiser, Peter Rainer, Yoon, Ho Sup, Lescar, Julien

“…It binds to a α/β protein module of approximately 120 amino acids known as the FK506 binding domain (FKBD), which is found in various organisms, including human, yeast, and Plasmodium falciparum (PfFKBD). Antiparasitic effects of FK506 and its analogues devoid of immunosuppressive activities have been demonstrated. …”
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Finding transcription factor binding motifs for coregulated genes by combining sequence overrepresentation with cross-species conservation by Jia, Hui., Li, Jinming.

“…Compared with the prevailing motif finding software, our method has some advantages in finding transcriptional factor binding motifs for potential coregulated genes if the gene upstream sequences of multiple closely related species are available. Although we used yeast genomes to assess our method in this study, it might also be applied to other organisms if suitable related species are available and the upstream sequences of coregulated genes can be obtained for the multiple closely related species.…”
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Niemann-Pick type c disease: pathogenesis and therapy by Colaco, A

“…To gain further insight into the function of NPC1 and proteins it interacts with we used the yeast orthologue, Ncr1p. I recreated the Δncr1 mutant and characterized the mutant using an array of systematic screens to identify different processes and pathways that may play a role in NPC pathogenesis. …”

Isolation of Bifidobacteria infantis and its antagonistic activity against ETEC 0157 and Salmonella typhimurium S-285 in weaning foods by Mohd Yusof, Rokiah, Haque, Formuzul, Ismail, Maznah, Hassan, Zaiton

“…Trypticase phytone peptone yeast extract agar (TPY) was used as a selective media for the isolation. …”

Structural investigation, computational analysis, and theoretical cryoprotectant approach of antifreeze protein type IV mutants by Eskandari, Azadeh, Leow, Thean Chor, Abdul Rahman, Mohd Basyaruddin, Oslan, Siti Nurbaya

“…In this in silico study, the helical peptide afp1m from an Antarctic yeast AFP was modeled into a sculpin AFPIV, to replace each of its four α-helices in turn, using various computational tools. …”

Microbial lipid production from food waste saccharified liquid and the effects of compositions by Ma, Xiaoyu, Gao, Zhen, Gao, Ming, Ma, Yingqun, Ma, Hongzhi, Zhang, Min, Liu, Yu, Wang, Qunhui

“…The residues of food waste after removing waste cooking oils could be converted to microbial lipid by oleaginous yeasts and microbial lipid could be used as a raw material of biodiesel with waste cooking oils. …”
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R-loopDB: a database for R-loop forming sequences (RLFS) and R-loops by Jenjaroenpun, Piroon, Wongsurawat, Thidathip, Sutheeworapong, Sawannee, Kuznetsov, Vladimir A.

“…It includes genome-scale prediction of RLFSs for humans, six other animals and yeast. Using the extended quantitative model of RLFSs (QmRLFS), we significantly increased the number of RLFSs predicted in the human genes and identified RLFSs in other organism genomes. …”
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Expression of recombinant geobacillus SP a-amylase in pichia pastoris GS 115 by Gandhi, Sivasangkary

“…Pichia pastoris is a currently well established methanol utilizing yeast expression system. The aim of the studies was to produce a recombinant Geobacillus sp. α-amylase SR74 in P. pastoris GS115 and characterize the biochemical properties of the purified recombinant α-amylase. …”
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Cellular studies on the role of OGFOD1, a 2-oxoglutarate-dependent dioxygenase by Attwood, M

“…<p>2-Oxoglutarate (2-OG) and iron (Fe²⁺) dependent Oxygenase Domain containing protein 1 (OGFOD1) is an evolutionarily conserved prolyl hydroxylase enzyme in mammals, invertebrates (Sud1 in D. melanogaster) and yeast (TPA1 in S. cerevisiae and Ofd1 in S. pombe). …”

Medium formulation and optimisation of fermentation condition enhancing g-aminobutyric Acid (GABA) biosynthesis by Lactiplantibacillus plantarum B7 by Pannerchelvan, Sangkaran, Faizal Wong, Fadzlie Wong, Wasoh, Helmi, Mohamed, Mohd Shamzi, Mohamad, Rosfarizan, Halim, Murni

“…A nutrient-rich medium was developed through single-parameter optimisation, comprising 1%, 2.5% and 0.0002% of glucose, yeast extract and each trace element (CaCO3, KI, and Tween 80) respectively. …”
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14-3-3 interaction with phosphodiesterase 8A sustains PKA signaling and downregulates the MAPK pathway by Mukherjee, Soumita, Roy, Somesh, Mukherjee, Shruti, Harikishore, Amaravadhi, Bhunia, Anirban, Mandal, Atin K.

“…Here, we report that PDE8A interacts with 14-3-3ζ in both yeast and mammalian system, and this interaction is enhanced upon the activation of PKA, which phosphorylates PDE8A's Ser359 residue. …”
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The development and application of mass-spectrometry-based tools to monitor proteome remodeling in microbes by Telusma, Bertina

“…In chapters 3 and 4, I apply these methods to the methylotrophic yeast, Komagataella phaffii, which grows robustly on a diverse set of carbon sources. …”
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TEOSINTE BRANCHED1/CYCLOIDEA/PROLIFERATING CELL FACTOR4 Interacts with WRINKLED1 to mediate seed oil biosynthesis by Kong, Que, Singh, Sanjay K., Mantyla, Jenny J., Pattanaik, Sitakanta, Guo, Liang, Yuan, Ling, Benning, Christoph, Ma, Wei

“…We screened a TF library using Arabidopsis (Arabidopsis thaliana) WRI1 (AtWRI1) as bait in yeast two-hybrid assays and identified three TEOSINTE BRANCHED1/CYCLOIDEA/PROLIFERATING CELL FACTOR (TCP) family TFs, namely TCP4, TCP10, and TCP24, as AtWRI1-interacting partners. …”
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Three distinct 3-methylcytidine (m3C) methyltransferases modify tRNA and mRNA in mice and humans by Xu, Luang, Liu, Xinyu, Sheng, Na, Oo, Kyaw Soe, Liang, Junxin, Chionh, Yok Hian, Xu, Juan, Ye, Fuzhou, Gao, Yong-Gui, Dedon, Peter C., Fu, Xin-Yuan

“…However, the recent discovery of trm141 as the second gene responsible for m3C presence in RNA in fission yeast raises the possibility that multiple enzymes are involved in m3C formation in mammals as well. …”
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Formulation, optimization and characterization of palm kernel oil esters nanoemulsion system containing sodium diclofenac by Rezaee, Malahat

“…Aerobic plate count, and yeast and mould count tests showed that there were no bacteria and fungus growth in the samples. …”
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Partial purification and characterization of molybdenum reducing enzyme from Escherichia coli strain K12 by Sulaiman, Mohd Haris

“…The combination of 1% (w/v) glucose,0.4% (w/v) ammonium chloride, 0.2% (w/v) yeast extract, and in ratio of 5mM phosphate and 80mM molybdate at pH 7.5 gave the optimum production of Molybdenum blue. …”
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Spatial inter-centromeric interactions facilitated the emergence of evolutionary new centromeres by Guin, Krishnendu, Chen, Yao, Mishra, Radha, Siti Rawaidah B. M. Muzaki, Thimmappa, Bhagya C., O'Brien, Caoimhe E., Butler, Geraldine, Sanyal, Amartya, Sanyal, Kaustuv

“…We propose that spatial proximity of the homologous centromere DNA sequences facilitated karyotype rearrangements and centromere type transitions in human pathogenic yeasts of the CUG-Ser1 clade.…”
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