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Article ; Online: Sequencing of the Hepatitis D Virus RNA WHO International Standard.

Pyne, M T / Mallory, M A / Xie, H B / Mei, Y / Schlaberg, R / Hillyard, D R

Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology

2017 Volume 90, Page(s) 52–56

Abstract: ... secondary standards derived from them. In 2013, the 1st WHO International Standard for Hepatitis D Virus ...

Abstract	Background: Well-characterized, stable calibration materials are essential to standardize quantitative viral reporting. The preferred calibration materials are the WHO International Standards and secondary standards derived from them. In 2013, the 1st WHO International Standard for Hepatitis D Virus (HDV) RNA became available. During the course of assay development in our laboratory, differences between the published sequence (GenBank ID: HQ005371) and sequence we generated from the WHO HDV Standard were identified. Objectives: We sought to sequence the entire genome of the WHO HDV Standard and compare the results to the published sequence. Study design: RNA extracted from the WHO HDV Standard was used to generate five overlapping PCR products, including one covering the entire HDV genome, which were Sanger sequenced using standard dye-terminator chemistry. Total RNA from the WHO HDV Standard was also converted to a cDNA library generating 2.1 million sequencing reads on a NextSeq500 instrument. Results: Sanger sequencing produced 32 overlapping, partial sequences of the HDV genome. RNA-seq resulted in 8100 HDV sequences covering the viral genome an average of 645-fold. Sanger and RNA-seq consensus sequences had 100% agreement and showed 89.0% nucleotide identity with the published WHO HDV Standard sequence. BLAST analysis revealed HQ005369 as the closest match with 99.2% nucleotide identity. Conclusions: HQ005369 was deposited in GenBank along with HQ005371 and seven others from a study of nine Turkish patients. A sample mix-up or clerical error may have resulted in the incorrect association of identifier and sequence. The correct nucleic acid sequence for standards is critical for test accuracy, optimization, calibration, and troubleshooting.
Language	English
Publishing date	2017-05
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	1446080-4
ISSN	1873-5967 ; 1386-6532
ISSN (online)	1873-5967
ISSN	1386-6532
DOI	10.1016/j.jcv.2017.03.009
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Article ; Online: Synergy of melanin and vitamin-D may play a fundamental role in preventing SARS-CoV-2 infections and halt COVID-19 by inactivating furin protease.

Paria, Kishalay / Paul, Debarati / Chowdhury, Trinath / Pyne, Smritikana / Chakraborty, Ranadhir / Mandal, Santi M

Translational medicine communications

2020 Volume 5, Issue 1, Page(s) 21

Abstract: ... in health care management of COVID-19. Vitamin D is known to enhance the rate of melanin synthesis; and ... On the other hand, furin expression is negatively regulated via 1-α-hydroxylase (CYP27B1), that belongs to vitamin-D ... of melanin and the enzyme CYP27B1 (regulates vitamin D biosynthesis) as a novel strategy to prevent viral ...

Abstract	Since the birth of Christ, in these 2019 years, the man on earth has never experienced a survival challenge from any acellular protist compared to SARS-CoV-2. No specific drugs yet been approved. The host immunity is the only alternative to prevent and or reduce the infection and mortality rate as well. Here, a novel mechanism of melanin mediated host immunity is proposed having potent biotechnological prospects in health care management of COVID-19. Vitamin D is known to enhance the rate of melanin synthesis; and this may concurrently regulate the expression of furin expression. In silico analyses have revealed that the intermediates of melanin are capable of binding strongly with the active site of furin protease. On the other hand, furin expression is negatively regulated via 1-α-hydroxylase (CYP27B1), that belongs to vitamin-D pathway and controls cellular calcium levels. Here, we have envisaged the availability of biological melanin and elucidated the bio-medical potential. Thus, we propose a possible synergistic application of melanin and the enzyme CYP27B1 (regulates vitamin D biosynthesis) as a novel strategy to prevent viral entry through the inactivation of furin protease and aid in boosting our immunity at the cellular and humoral levels.
Keywords	covid19
Language	English
Publishing date	2020-11-05
Publishing country	England
Document type	Journal Article ; Review
ISSN	2396-832X
ISSN (online)	2396-832X
DOI	10.1186/s41231-020-00073-y
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Antagonist Effects of l-Phenylalanine and the Enantiomeric Mixture Containing d-Phenylalanine on Phospholipid Vesicle Membrane.

Nandi, Sourav / Pyne, Arghajit / Ghosh, Meghna / Banerjee, Pavel / Ghosh, Biswajoy / Sarkar, Nilmoni

Langmuir : the ACS journal of surfaces and colloids

2020 Volume 36, Issue 9, Page(s) 2459–2473

Abstract: One of the congenital flaws of metabolism, phenylketonuria (PKU), is known to be related to the self-assembly of toxic fibrillar aggregates of phenylalanine (Phe) in blood at elevated concentrations. Our experimental findings using l-phenylalanine (l-Phe) ...

Abstract	One of the congenital flaws of metabolism, phenylketonuria (PKU), is known to be related to the self-assembly of toxic fibrillar aggregates of phenylalanine (Phe) in blood at elevated concentrations. Our experimental findings using l-phenylalanine (l-Phe) at millimolar concentration suggest the formation of fibrillar morphologies in the dry phase, which in the solution phase interact strongly with the model membrane composed of 1,2-diacyl-
MeSH term(s)	Amyloid/chemistry ; Liposomes/chemistry ; Membrane Fluidity/drug effects ; Permeability/drug effects ; Phenylalanine/chemistry ; Phosphatidylcholines/chemistry ; Stereoisomerism
Chemical Substances	Amyloid ; Liposomes ; Phosphatidylcholines ; Phenylalanine (47E5O17Y3R)
Language	English
Publishing date	2020-03-02
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2005937-1
ISSN	1520-5827 ; 0743-7463
ISSN (online)	1520-5827
ISSN	0743-7463
DOI	10.1021/acs.langmuir.9b03543
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: Antagonist Effects of l-Phenylalanine and the Enantiomeric Mixture Containing d-Phenylalanine on Phospholipid Vesicle Membrane

Nandi, Sourav / Pyne, Arghajit / Ghosh, Meghna / Banerjee, Pavel / Ghosh, Biswajoy / Sarkar, Nilmoni

Langmuir. 2020 Feb. 19, v. 36, no. 9

2020

Abstract: ... in the presence of its enantiomer d-phenylalanine (d-Phe), thereby converting the fibrillar morphologies ... that this l-Phe in the presence of d-Phe, when interacting with the same model membrane, now reverts ... fluidity of the membrane in the presence of l-Phe and certifies d-Phe as a therapeutic modulator of l-Phe fibrillar ...

Abstract	One of the congenital flaws of metabolism, phenylketonuria (PKU), is known to be related to the self-assembly of toxic fibrillar aggregates of phenylalanine (Phe) in blood at elevated concentrations. Our experimental findings using l-phenylalanine (l-Phe) at millimolar concentration suggest the formation of fibrillar morphologies in the dry phase, which in the solution phase interact strongly with the model membrane composed of 1,2-diacyl-sn-glycero-phosphocholine (LAPC) lipid, thereby decreasing the rigidity (or increasing the fluidity) of the membrane. The hydrophobic interaction, in addition to the electrostatic attraction of Phe with the model membrane, is found to be responsible for such phenomena. On the contrary, various microscopic observations reveal that such fibrillar morphologies of l-Phe are severely ruptured in the presence of its enantiomer d-phenylalanine (d-Phe), thereby converting the fibrillar morphologies into crushed flakes. Various biophysical studies, including the solvation dynamics experiment, suggest that this l-Phe in the presence of d-Phe, when interacting with the same model membrane, now reverts the rigidity of the membrane, i.e., increases the rigidity of the membrane, which was lost due to interaction with l-Phe exclusively. Fluorescence anisotropy measurements also support this reverse rigid character of the membrane in the presence of an enantiomeric mixture of amino acids. A comprehensive understanding of the interaction of Phe with the model membrane is further pursued at the single-molecular fluorescence detection level using fluorescence correlation spectroscopy (FCS) experiments. Therefore, our experimental conclusion interprets a linear correlation between increased permeability and enhanced fluidity of the membrane in the presence of l-Phe and certifies d-Phe as a therapeutic modulator of l-Phe fibrillar morphologies. Further, the study proposes that the rigidity of the membrane lost due to interaction with l-Phe was reinstated—in fact, increased—in the presence of the enantiomeric mixture containing both d- and l-Phe.
Keywords	anisotropy ; antagonists ; blood ; electrostatic interactions ; enantiomers ; fluorescence ; fluorescence correlation spectroscopy ; hydrophobic bonding ; metabolism ; microscopy ; models ; permeability ; phenylalanine ; phenylketonuria ; phospholipids ; solvation ; therapeutics ; toxicity
Language	English
Dates of publication	2020-0219
Size	p. 2459-2473.
Publishing place	American Chemical Society
Document type	Article
ZDB-ID	2005937-1
ISSN	1520-5827 ; 0743-7463
ISSN (online)	1520-5827
ISSN	0743-7463
DOI	10.1021/acs.langmuir.9b03543
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Synergy of melanin and vitamin-D may play a fundamental role in preventing SARS-CoV-2 infections and halt COVID-19 by inactivating furin protease

Kishalay Paria / Debarati Paul / Trinath Chowdhury / Smritikana Pyne / Ranadhir Chakraborty / Santi M. Mandal

Translational Medicine Communications, Vol 5, Iss 1, Pp 1-

2020 Volume 14

Abstract: ... prospects in health care management of COVID-19. Vitamin D is known to enhance the rate of melanin synthesis ... that belongs to vitamin-D pathway and controls cellular calcium levels. Here, we have envisaged ... application of melanin and the enzyme CYP27B1 (regulates vitamin D biosynthesis) as a novel strategy ...

Abstract	Abstract Since the birth of Christ, in these 2019 years, the man on earth has never experienced a survival challenge from any acellular protist compared to SARS-CoV-2. No specific drugs yet been approved. The host immunity is the only alternative to prevent and or reduce the infection and mortality rate as well. Here, a novel mechanism of melanin mediated host immunity is proposed having potent biotechnological prospects in health care management of COVID-19. Vitamin D is known to enhance the rate of melanin synthesis; and this may concurrently regulate the expression of furin expression. In silico analyses have revealed that the intermediates of melanin are capable of binding strongly with the active site of furin protease. On the other hand, furin expression is negatively regulated via 1-α-hydroxylase (CYP27B1), that belongs to vitamin-D pathway and controls cellular calcium levels. Here, we have envisaged the availability of biological melanin and elucidated the bio-medical potential. Thus, we propose a possible synergistic application of melanin and the enzyme CYP27B1 (regulates vitamin D biosynthesis) as a novel strategy to prevent viral entry through the inactivation of furin protease and aid in boosting our immunity at the cellular and humoral levels.
Keywords	Vitamin-D ; Furin ; Melanin ; SARS-CoV-2 ; COVID-19 ; Microbial melanin synthesis ; Medicine ; R
Subject code	570
Language	English
Publishing date	2020-11-01T00:00:00Z
Publisher	BMC
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Synergy of melanin and vitamin-D may play a fundamental role in preventing SARS-CoV-2 infections and halt COVID-19 by inactivating furin protease

Paria, Kishalay Paul Debarati Chowdhury Trinath Pyne Smritikana Chakraborty Ranadhir Mandal Santi M.

Translational Medicine Communications

Abstract: ... in health care management of COVID-19 Vitamin D is known to enhance the rate of melanin synthesis;and ... On the other hand, furin expression is negatively regulated via 1-α-hydroxylase (CYP27B1), that belongs to vitamin-D ... of melanin and the enzyme CYP27B1 (regulates vitamin D biosynthesis) as a novel strategy to prevent viral ...

Abstract	Since the birth of Christ, in these 2019 years, the man on earth has never experienced a survival challenge from any acellular protist compared to SARS-CoV-2 No specific drugs yet been approved The host immunity is the only alternative to prevent and or reduce the infection and mortality rate as well Here, a novel mechanism of melanin mediated host immunity is proposed having potent biotechnological prospects in health care management of COVID-19 Vitamin D is known to enhance the rate of melanin synthesis;and this may concurrently regulate the expression of furin expression In silico analyses have revealed that the intermediates of melanin are capable of binding strongly with the active site of furin protease On the other hand, furin expression is negatively regulated via 1-α-hydroxylase (CYP27B1), that belongs to vitamin-D pathway and controls cellular calcium levels Here, we have envisaged the availability of biological melanin and elucidated the bio-medical potential Thus, we propose a possible synergistic application of melanin and the enzyme CYP27B1 (regulates vitamin D biosynthesis) as a novel strategy to prevent viral entry through the inactivation of furin protease and aid in boosting our immunity at the cellular and humoral levels
Keywords	covid19
Publisher	WHO
Document type	Article
Note	WHO #Covidence: #909168
Database	COVID19

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Article ; Online: New Approaches for Dissemination and Implementation of Sport-Science Research Outcomes.

Pyne, David B / Périard, Julien D

International journal of sports physiology and performance

2023 Volume 18, Issue 2, Page(s) 109–110

MeSH term(s)	Humans ; Sports ; Translational Research, Biomedical
Language	English
Publishing date	2023-01-13
Publishing country	United States
Document type	Editorial
ISSN	1555-0273
ISSN (online)	1555-0273
DOI	10.1123/ijspp.2022-0443
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Preparing a High-Quality and Impactful Sport Science Manuscript

Pyne, David

International journal of sports physiology and performance

2020 Volume 15, Issue 5, Page(s) 598–599

MeSH term(s)	Humans ; Manuscripts as Topic ; Periodicals as Topic ; Publishing ; Sports Medicine
Language	English
Publishing date	2020-04-02
Publishing country	United States
Document type	Editorial
ISSN	1555-0273
ISSN (online)	1555-0273
DOI	10.1123/ijspp.2020-0129
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Article ; Online: A new protoberberine alkaloid from Meconopsis simplicifolia (D. Don) Walpers with potent antimalarial activity against a multidrug resistant Plasmodium falciparum strain.

Wangchuk, Phurpa / Phurpa, Wangchuk / Keller, Paul A / Pyne, Stephen G / Lie, Wilford / Willis, Anthony C / Rattanajak, Roonglawan / Kamchonwongpaisan, Sumalee

Journal of ethnopharmacology

2013 Volume 150, Issue 3, Page(s) 953–959

Abstract: Ethnopharmacological relevance: The aerial components of Meconopsis simplicifolia (D. Don) Walpers ... phytochemical constituents.: Materials and methods: Meconopsis simplicifolia (D. Don) Walpers was collected ...

Abstract	Ethnopharmacological relevance: The aerial components of Meconopsis simplicifolia (D. Don) Walpers are indicated in Bhutanese traditional medicine for treating malaria, coughs and colds, and the infections of the liver, lung and blood. This study is to validate the ethnopharmacological uses of this plant and also identify potent antimalarial drug leads through bioassays of its crude extracts and phytochemical constituents. Materials and methods: Meconopsis simplicifolia (D. Don) Walpers was collected from Bhutan and its crude MeOH extract was subjected to acid-base fractionation. Through repeated extractions, separations and spectroscopic analysis, the alkaloids obtained were identified and tested for their antimalarial and cytotoxicity activities. Results: Phytochemical studies resulted in the isolation of one new protoberberine type alkaloid which we named as simplicifolianine and five known alkaloids: protopine, norsanguinarine, dihydrosanguinarine, 6-methoxydihydrosanguinarine and oxysanguinarine. Among the five of the alkaloids tested, simplicifolianine showed the most potent antiplasmodial activities against the Plasmodium falciparum strains, TM4/8.2 (chloroquine-antifolate sensitive strain) and K1CB1 (multidrug resistant strain) with IC50 values of 0.78 μg/mL and 1.29 μg/mL, respectively. The compounds tested did not show any significant cytotoxicity activities against human oral carcinoma KB cells and normal Vero cells of African kidney epithelial cells. Conclusions: This study validated the traditional uses of the plant for the treatment of malaria and identified a new alkaloid, simplicifolianine as a potential antimalarial drug lead.
MeSH term(s)	Alkaloids/pharmacology ; Animals ; Antimalarials/pharmacology ; Berberine Alkaloids/pharmacology ; Cell Survival ; Cercopithecus aethiops ; Papaveraceae ; Plant Extracts/pharmacology ; Plasmodium falciparum/drug effects ; Vero Cells
Chemical Substances	Alkaloids ; Antimalarials ; Berberine Alkaloids ; Plant Extracts ; protoberberine (19716-69-9)
Language	English
Publishing date	2013-12-12
Publishing country	Ireland
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	134511-4
ISSN	1872-7573 ; 0378-8741
ISSN (online)	1872-7573
ISSN	0378-8741
DOI	10.1016/j.jep.2013.09.052
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Article ; Online: The Benefits of Mentoring for Researchers and Sports Scientists-Who Do I Help?

Pyne, David

International journal of sports physiology and performance

2018 Volume 13, Issue 9, Page(s) 1113

MeSH term(s)	Career Mobility ; Humans ; Mentoring ; Research ; Sports
Language	English
Publishing date	2018-10-12
Publishing country	United States
Document type	Editorial
ISSN	1555-0273
ISSN (online)	1555-0273
DOI	10.1123/ijspp.2018-0688
Database	MEDical Literature Analysis and Retrieval System OnLINE

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