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1. Disulfide linked hetero dimeric peptide arrays for screening functional peptides inside cells

Author:
Kozaki, Ikko; Shimizu, Kazunori; Honda, Hiroyuki
Source:
Journal of bioscience and bioengineering 2020 v.129 no.5 pp. 613-618
ISSN:
1389-1723
Subject:
amino acid substitution,   etc   ; cell death; dissociation; disulfide bonds; disulfides; peptides; screening;     Show all 7 Subjects
Abstract:
... Intracellular functional peptides with important roles in cells have been widely studied as regulators of cellular activity. Previously, we proposed a screening system for identifying intracellular functional peptides, which can be utilized to synthesize various cell-penetrating peptide (CPP)-functional peptide complexes, and the intracellular functions of the peptides can then be determined using ...
DOI:
10.1016/j.jbiosc.2019.11.012

2. In situ analysis of intact proteins by ion mobility mass spectrometry

Author:
Sisley, Emma K.; Illes-Toth, Eva; Cooper, Helen J.
Source:
Trends in analytical chemistry 2020 v.124 pp. 115534
ISSN:
0165-9936
Subject:
amino acid substitution,   etc   ; desorption; ionization; liquids; mass spectrometry; post-translational modification; proteins; sampling; spatial data;     Show all 9 Subjects
Abstract:
... We describe ion mobility mass spectrometry techniques for the in situ analysis of intact proteins, i.e., the analysis of proteins directly from their biological environment. The benefits of in situ analysis include those associated more broadly with analysis of intact proteins, e.g., retention of connectivity between post-translational modifications and direct determination of amino acid substitut ...
DOI:
10.1016/j.trac.2019.05.036

3. Pervasive Pairwise Intragenic Epistasis among Sequential Mutations in TEM-1 β-Lactamase

Author:
Gonzalez, Courtney E.; Ostermeier, Marc
Source:
Journal of molecular biology 2019 v.431 no.10 pp. 1981-1992
ISSN:
0022-2836
Subject:
amino acid substitution,   etc   ; beta-lactamase; epistasis; surveys;     Show all 4 Subjects
Abstract:
... Interactions between mutations play a central role in shaping the fitness landscape, but a clear picture of intragenic epistasis has yet to emerge. To further reveal the prevalence and patterns of intragenic epistasis, we present a survey of epistatic interactions between sequential mutations in TEM-1 β-lactamase. We measured the fitness effect of ~12,000 pairs of consecutive amino acid substituti ...
DOI:
10.1016/j.jmb.2019.03.020
PubMed:
30922874
PubMed Central:
PMC6502654

4. Point mutation in CYP51A1 of Venturia inaequalis is associated with low sensitivity to sterol demethylation inhibitors

Author:
Yaegashi, Hajime; Hirayama, Kazuyuki; Akahira, Tomoya; Ito, Tsutae
Source:
Journal of general plant pathology 2020 v.86 no.4 pp. 245-249
ISSN:
1345-2630
Subject:
amino acid substitution,   etc   ; Venturia inaequalis; apple scab; demethylation; enzymes; fungi; genes; lanosterol; phenylalanine; point mutation; tyrosine; Japan;     Show all 12 Subjects
Abstract:
... In 2016, a serious outbreak of apple scab (caused by Venturia inaequalis) in Aomori Prefecture, Japan, resulted from reduced fungal sensitivity to sterol demethylation inhibitors (DMIs). In this study, the lanosterol 14α-demethylase (CYP51A1) gene of V. inaequalis isolates from Aomori Prefecture was analyzed. A nonsynonymous nucleotide polymorphism causing an amino acid substitution from tyrosine ...
DOI:
10.1007/s10327-020-00924-4

5. Amino acid substitutions involved in the adaptation of a novel H7N7 avian influenza virus in mice

Author:
Wu, Haibo; Liu, Fumin; Yang, Fan; Xiao, Yixin; Yao, Hangping; Wu, Nanping
Source:
Research in veterinary science 2020 v.130 pp. 203-206
ISSN:
0034-5288
Subject:
amino acid substitution,   etc   ; Influenza A virus; amino acids; genomics; human health; humans; mice; monitoring; poultry; proteins; virulence; viruses;     Show all 12 Subjects
Abstract:
... The H7N7 avian influenza viruses can infect humans and poses a great threat to human health. To identify the amino acid substitutions that are associated with adaptation of avian-origin H7N7 virus to mammals, adaptation of the H7N7 virus was carried out by serial lung-to-lung passage in mice. Genomic analysis of the mouse-adapted virus revealed amino acid changes in the PB2 (E525G, M645I, and D701 ...
DOI:
10.1016/j.rvsc.2020.03.017

6. Formation of bioactive peptides during simulated gastrointestinal digestion is affected by αs1-casein polymorphism in buffalo milk

Author:
Li, Shanshan; Hu, Qi; Chen, Chen; Liu, Jianxin; He, Guoqing; Li, Ling; Wu, Jianping; Ren, Daxi
Source:
Food chemistry 2020 v.313 pp. 126159
ISSN:
0308-8146
Subject:
amino acid substitution,   etc   ; alphaS1-casein; antioxidants; bioactive properties; buffalo milk; buffaloes; digestibility; in vitro digestion; particle size; peptides; tranquilizers;     Show all 11 Subjects
Abstract:
... The polymorphism of buffalo αₛ₁-casein has been reported, but little is known about their effect on the biological properties. The objective of this study was to investigate the effect of αₛ₁-casein polymorphism on the digestive properties and bioactivities of buffalo milk protein in simulated gastrointestinal digestion. In this study, two variants of αₛ₁-casein, with one amino acid substitution o ...
DOI:
10.1016/j.foodchem.2020.126159

7. F-segments of Arabidopsis dehydrins show cryoprotective activities for lactate dehydrogenase depending on the hydrophobic residues

Author:
Ohkubo, Tomohiro; Kameyama, Ayuko; Kamiya, Keita; Kondo, Mitsuru; Hara, Masakazu
Source:
Phytochemistry 2020 v.173 pp. 112300
ISSN:
0031-9422
Subject:
amino acid substitution,   etc   ; Arabidopsis; aqueous solutions; circular dichroism spectroscopy; cryoprotectants; dehydrins; glycine (amino acid); hydrophobic bonding; hydrophobicity; lactate dehydrogenase;     Show all 10 Subjects
Abstract:
... Although dehydrins show cryoprotective activities for freeze-sensitive enzymes, the underlying mechanism is still under investigation. Here, we report that F-segments conserved in some dehydrins cryoprotected lactate dehydrogenase (LDH) as well as K-segments, which were previously identified as cryoprotective segments of dehydrins. The cryoprotective activity levels of four F-segments of Arabidops ...
DOI:
10.1016/j.phytochem.2020.112300

8. Artificial control of the multistep oxidation reactions catalyzed by the cytochrome P450 enzyme RosC

Author:
Iizaka, Yohei; Kanai, Hiroshi; Suzuki, Tomoko; Maruyama, Yuna; Kurita, Misa; Sano, Momoho; Watanabe, Arisa; Fukumoto, Atsushi; Saito, Ryota; Anzai, Yojiro
Source:
Applied microbiology and biotechnology 2020 v.104 no.8 pp. 3403-3415
ISSN:
0175-7598
Subject:
amino acid substitution,   etc   ; Escherichia coli; Micromonospora rosaria; alcohols; aldehydes; biosynthesis; catalytic activity; cytochrome P-450; genes; mutants; oxidation; oxygenases;     Show all 12 Subjects
Abstract:
... The cytochrome P450 monooxygenase RosC catalyzes the three-step oxidation reactions, which leads to the formation of a hydroxy, formyl, and carboxy group at C-20 during rosamicin biosynthesis in Micromonospora rosaria IFO13697. To determine if amino acid substitutions in RosC could allow for the control of the multistep oxidation reactions, we screened RosC random mutants. The RosC mutant RM30, wi ...
DOI:
10.1007/s00253-020-10481-7

9. Molecular Characterization of Hamster-Adapted Yellow Fever Virus

Author:
McArthur, Monica A.; Zhang, Shuliu L.; Li, Li; Tesh, Robert B.; Barrett, Alan D.T.
Source:
Vector borne and zoonotic diseases 2020 v.20 no.3 pp. 222-227
ISSN:
1557-7759
Subject:
amino acid substitution,   etc   ; Yellow fever virus; animal models; hamsters; humans; nucleotide sequences; phenotype; prototypes; viral nonstructural proteins; viruses; Panama;     Show all 11 Subjects
Abstract:
... We previously reported two hamster models for viscerotropic yellow fever virus (YFV) infection: one using a YFV strain (Jiménez), isolated from a fatal human case in Panama in 1974, and the other using the prototype YFV strain (Asibi). Asibi hamster passage 7 (P7) was associated with accumulation of seven amino acid substitutions, including five in the envelope protein. In this study we report the ...
DOI:
10.1089/vbz.2019.2495
PubMed:
31794691
PubMed Central:
PMC7081246

10. Glutamic acid at position 152 and serine at position 191 are key residues required for the metallo-β-lactamase activity of NDM-7

Author:
Kumar, Gaurav; Issa, Bagre; Biswal, Sarmistha; Jain, Diamond; Bhattacharjee, Amitabha; Ghosh, Anindya S.
Source:
International journal of antimicrobial agents 2020 v.55 no.1 pp. 105824
ISSN:
0924-8579
Subject:
amino acid substitution,   etc   ; active sites; alanine; antibiotic resistance; beta-lactamase; carbapenems; enzyme activity; glutamic acid; mutants; penicillins; public health; serine;     Show all 12 Subjects
Abstract:
... New Delhi metallo-β-lactamase (NDM) is of significant public-health concern due to its enormous potential to hydrolyse all of the major β-lactams, including carbapenems. Previous reports indicate that amino acid substitutions affect NDM activity despite being located outside of the active site. In this study, we attempted to identify specific mutations in loops near the active site that can influe ...
DOI:
10.1016/j.ijantimicag.2019.10.005

11. Construction and Analysis of Amino Acid Substitution Matrices for Optimal Alignment of Microbial Rhodopsin Sequences

Author:
Novoseletsky, V. N.; Armeev, G. A.; Shaitan, K. V.
Source:
Moscow University biological sciences bulletin 2019 v.74 no.1 pp. 21-25
ISSN:
0096-3925
Subject:
amino acid substitution,   etc   ; amino acid sequences; bioinformatics; rhodopsin;     Show all 4 Subjects
Abstract:
... Pairwise alignment of amino acid sequences is the basic tool of bioinformatics, which is widely used both independently and within numerous more complex methods. The effectiveness of this tool critically depends on the scoring function used, which consists of a substitution matrix and gap penalties. In this work, amino acid substitution matrices for the superfamily of microbial rhodopsins (RHOD) w ...
DOI:
10.3103/S009639251901005X

12. Promising application of monoclonal antibody against chikungunya virus E1-antigen across genotypes in immunochromatographic rapid diagnostic tests

Author:
Suzuki, Keita; Huits, Ralph; Phadungsombat, Juthamas; Tuekprakhon, Aekkachai; Nakayama, Emi E.; van den Berg, Riemsdijk; Barbé, Barbara; Cnops, Lieselotte; Rahim, Rummana; Hasan, Abu; Iwamoto, Hisahiko; Leaungwutiwong, Pornsawan; van Esbroeck, Marjan; Rahman, Mizanur; Shioda, Tatsuo
Source:
Virology journal 2020 v.17 no.1 pp. 90
ISSN:
1743-422X
Subject:
amino acid substitution,   etc   ; Chikungunya virus; Sindbis virus; confidence interval; cross reaction; detection limit; diagnostic techniques; genotype; immunoaffinity chromatography; monoclonal antibodies; patients; rapid methods; viruses; Aruba; Bangladesh;     Show all 15 Subjects
Abstract:
... BACKGROUND: Three different genotypes of chikungunya virus (CHIKV) have been classified: East/Central/South African (ECSA), West African (WA), and Asian. Previously, a rapid immunochromatographic (IC) test detecting CHIKV E1-antigen showed high sensitivity for certain ECSA-genotype viruses, but this test showed poor performance against the Asian-genotype virus that is spreading in the American con ...
DOI:
10.1186/s12985-020-01364-4

13. Co-infection status of porcine circoviruses (PCV2 and PCV3) and porcine epidemic diarrhea virus (PEDV) in pigs with watery diarrhea in Henan province, central China

Author:
Guo, Zhenhua; Ruan, Haiyu; Qiao, Songlin; Deng, Ruiguang; Zhang, Gaiping
Source:
Microbial pathogenesis 2020 v.142 pp. 104047
ISSN:
0882-4010
Subject:
amino acid substitution,   etc   ; Circoviridae; Porcine epidemic diarrhea virus; diarrhea; genes; genetic variation; genotype; mixed infection; molecular epidemiology; piglets; pork industry; reverse transcriptase polymerase chain reaction; viruses; China;     Show all 14 Subjects
Abstract:
... Porcine circoviruses (PCV2 and PCV3) and porcine epidemic diarrhea virus (PEDV) are important swine viruses that threaten the swine industry worldwide. Here, we evaluated the co-infection status of PCV2, PCV3 and PEDV in 76 enteric samples from piglets with severe diarrhea disease in Henan, China. All samples were tested by PCR/RT-PCR. Our results showed that the infection rate of PCV2, PCV3 and P ...
DOI:
10.1016/j.micpath.2020.104047

14. Disease severity of respiratory syncytial virus (RSV) infection correlate to a novel set of five amino acid substitutions in the RSV attachment glycoprotein (G) in China

Author:
Li, Wanwei; Wang, Yanlan; Yu, Bo; Tan, Qiqi; Zhou, Jijian; Hu, Jingjing; Wu, Yuanbin; Wang, Bo; Li, Hongjian
Source:
Virus research 2020 v.281 pp. 197937
ISSN:
0168-1702
Subject:
amino acid substitution,   etc   ; Bayesian theory; Human orthopneumovirus; Respiratory syncytial virus; children; disease severity; genotype; glycoproteins; molecular epidemiology; patients; phylogeny; respiratory tract diseases; vaccine development; viruses; China;     Show all 15 Subjects
Abstract:
... Human respiratory syncytial virus (RSV) is one of the major viruses of acute respiratory tract disease among infants and young children. We performed molecular epidemiology analysis of RSV among inpatient children in Guangzhou, China. Phylogenetic and Bayesian analysis showed that genotype ON1 was the only subgroup A virus in this study. Interestingly, the majority of Guangzhou ON1 strains formed ...
DOI:
10.1016/j.virusres.2020.197937

15. Analysis of mutations in West Australian populations of Blumeria graminis f. sp. hordei CYP51 conferring resistance to DMI fungicides

Author:
Tucker, Madeline A; Lopez‐Ruiz, Francisco; Cools, Hans J; Mullins, Jonathon GL; Jayasena, Kithsiri; Oliver, Richard P
Source:
Pest management science 2020 v.76 no.4 pp. 1265-1272
ISSN:
1526-498X
Subject:
amino acid substitution,   etc   ; Blumeria graminis f. sp. hordei; Mycosphaerella graminicola; barley; cultivars; demethylation; genes; haplotypes; mechanism of action; mutational analysis; planting; powdery mildew; propiconazole; tebuconazole; yeasts; Australia;     Show all 16 Subjects
Abstract:
... BACKGROUND: Powdery mildew caused by Blumeria graminis f. sp. hordei (Bgh) is a constant threat to barley production but is generally well controlled through combinations of host genetics and fungicides. An epidemic of barley powdery mildew was observed from 2007 to 2013 in the West Australian grain belt. RESULTS: We collected isolates across Australia, examined their sensitivity to demethylation ...
DOI:
10.1002/ps.5636

16. HtrA‐dependent adherence and invasion of Campylobacter jejuni in human vs avian cells

Author:
Simson, D.; Boehm, M.; Backert, S.
Source:
Letters in applied microbiology 2020 v.70 no.4 pp. 326-330
ISSN:
0266-8254
Subject:
amino acid substitution,   etc   ; Campylobacter jejuni; bacteria; cell adhesion; chaperonins; chickens; enterocolitis; enzyme activity; genes; gentamicin; hosts; humans; intestines; livestock breeding; mutants; pathogenesis; proteolysis; serine proteinases; virulence;     Show all 19 Subjects
Abstract:
... The aim of this study was to investigate whether HtrA is responsible for differences in adherence and invasion of Campylobacter jejuni towards human and chicken cell lines. Gentamicin protection assays were performed with either human Caco‐2 or chicken 2G4 cells using C. jejuni strain NCTC11168 to compare the adhesion and invasion rates towards these two cell types. The results revealed significan ...
DOI:
10.1111/lam.13277

17. Intra‐strain biological and epidemiological characterization of plum pox virus

Author:
Maejima, Kensaku; Hashimoto, Masayoshi; Hagiwara‐Komoda, Yuka; Miyazaki, Akio; Nishikawa, Masanobu; Tokuda, Ryosuke; Kumita, Kohei; Maruyama, Noriko; Namba, Shigetou; Yamaji, Yasuyuki
Source:
Molecular plant pathology 2020 v.21 no.4 pp. 475-488
ISSN:
1464-6722
Subject:
amino acid substitution,   etc   ; Aphidoidea; Plum pox virus; amino acids; enzymes; financial economics; genome; genomics; monophyly; nucleotide sequences; plant viruses; viral load; viruses; Japan;     Show all 14 Subjects
Abstract:
... Plum pox virus (PPV) is one of the most important plant viruses causing serious economic losses. Thus far, strain typing based on the definition of 10 monophyletic strains with partially differentiable biological properties has been the sole approach used for epidemiological characterization of PPV. However, elucidating the genetic determinants underlying intra‐strain biological variation among po ...
DOI:
10.1111/mpp.12908
PubMed:
31978272
PubMed Central:
PMC7060144

18. Naturally occurring cell-adapted classic strain of infectious bursal disease virus

Author:
Wang, Yulong; Fan, Linjin; Jiang, Nan; Gao, Li; Li, Kai; Gao, Yulong; Liu, Changjun; Cui, Hongyu; Pan, Qing; Zhang, Yanping; Wang, Xiaomei; Qi, Xiaole
Source:
Veterinary microbiology 2020 v.243 pp. 108620
ISSN:
0378-1135
Subject:
amino acid substitution,   etc   ; Infectious bursal disease virus; animal experimentation; cell culture; chick embryos; chickens; etiological agents; fibroblasts; genome; infectious bursal disease; live vaccines; risk; sequence analysis; virulence; China;     Show all 15 Subjects
Abstract:
... Infectious bursal disease virus (IBDV), the etiological agent of infectious bursal disease (IBD), is a variable RNA virus of Avibirnavirus. Some artificially attenuated vaccine strains of IBDV can adapt to cell culture of chicken embryo fibroblast (CEF) cell or its immortalized cell line DF1 in vitro while wild-type IBDV cannot. In this study, for the first time, a naturally occurring cell-adapted ...
DOI:
10.1016/j.vetmic.2020.108620

19. New variants of AADC deficiency expand the knowledge of enzymatic phenotypes

Author:
Montioli, Riccardo; Bisello, Giovanni; Dindo, Mirco; Rossignoli, Giada; Voltattorni, Carla Borri; Bertoldi, Mariarita
Source:
Archives of biochemistry and biophysics 2020 v.682 pp. 108263
ISSN:
0003-9861
Subject:
amino acid substitution,   etc   ; amino acid sequences; amino acids; bioinformatics; catalytic activity; dopamine; enzymes; genes; genetic disorders; hydrophobicity; phenotype; pyridoxal; pyridoxal phosphate; serotonin; solubility;     Show all 15 Subjects
Abstract:
... AADC deficiency is a rare genetic disease caused by mutations in the gene of aromatic amino acid decarboxylase, the pyridoxal 5′-phosphate dependent enzyme responsible for the synthesis of dopamine and serotonin. Here, following a biochemical approach together with an in silico bioinformatic analysis, we present a structural and functional characterization of 13 new variants of AADC. The amino aci ...
DOI:
10.1016/j.abb.2020.108263

20. Neutralization capacity of highly divergent type 2 vaccine-derived polioviruses from immunodeficient patients

Author:
McDonald, Sharla L.; Weldon, William C.; Wei, Ling; Chen, Qi; Shaw, Jing; Zhao, Kun; Jorba, Jaume; Kew, Olen M.; Pallansch, Mark A.; Burns, Cara C.; Steven Oberste, M.
Source:
Vaccine 2020 v.38 no.14 pp. 3042-3049
ISSN:
0264-410X
Subject:
amino acid substitution,   etc   ; B-lymphocytes; Enterovirus C; at-risk population; coat proteins; developing countries; excretion; immunosuppression; monitoring; neutralization; paralysis; patients; vaccines; viruses;     Show all 14 Subjects
Abstract:
... The use of the oral poliovirus vaccine (OPV) in developing countries has reduced the incidence of poliomyelitis by >99% since 1988 and is the primary tool for global polio eradication. Spontaneous reversions of the vaccine virus to a neurovirulent form can impede this effort. In persons with primary B-cell immunodeficiencies, exposure to OPV can result in chronic infection, mutation, and excretion ...
DOI:
10.1016/j.vaccine.2020.02.035