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Article: Emergence of Multidrug-Resistant Non-Fermenting Gram-Negative Bacilli in a Tertiary Care Teaching Hospital of Central India: Is Colistin Resistance Still a Distant Threat?

Soni, Mitisha / Kapoor, Garima / Perumal, Nagaraj / Chaurasia, Deepti

2023 Volume 15, Issue 5, Page(s) e39243

Abstract: Purpose Multidrug-resistant (MDR) organisms are being increasingly reported from India. This study aimed to determine the antibiotic susceptibility pattern of non-fermenting Gram-negative bacilli (NF-GNB) isolated from all the clinical samples to ... ...

Abstract	Purpose Multidrug-resistant (MDR) organisms are being increasingly reported from India. This study aimed to determine the antibiotic susceptibility pattern of non-fermenting Gram-negative bacilli (NF-GNB) isolated from all the clinical samples to estimate the prevalence of MDR MDR NF-GNB and to screen for colistin-resistance genes among all colistin-resistant strains. Materials and methods This prospective study conducted from January 2021 to July 2022 at a tertiary care teaching hospital in central India identified MDR NF-GNB from clinical samples using standard procedures and antimicrobial susceptibility testing conducted as per Clinical Laboratory Standards Institute (CLSI) guidelines. Colistin-resistant strains identified by broth microdilution were further subjected to detection of plasmid-mediated colistin-resistant genes (
Language	English
Publishing date	2023-05-19
Publishing country	United States
Document type	Journal Article
ZDB-ID	2747273-5
ISSN	2168-8184
ISSN	2168-8184
DOI	10.7759/cureus.39243
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: Performance Evaluation of Different RT-PCR Kits for the Direct Detection of SARS-CoV-2 in Preheated Specimens.

Jain, Rajeev Kumar / Perumal, Nagaraj / Chaurasia, Deepti / Shrivastava, Rakesh / Ahirwar, Kamlesh Kumar / Sharma, Archa / Kapoor, Garima / Lalwani, Jaya

Journal of laboratory physicians

2023 Volume 15, Issue 3, Page(s) 383–391

Abstract: ... ...

Abstract	Background
Language	English
Publishing date	2023-01-30
Publishing country	Germany
Document type	Journal Article
ZDB-ID	2461120-7
ISSN	0974-7826 ; 0974-2727
ISSN (online)	0974-7826
ISSN	0974-2727
DOI	10.1055/s-0043-1760752
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: A retrospective analysis on seroprevalence of acute viral hepatitis observed among dengue patients attending a tertiary care centre in central India.

Jain, Rajeev Kumar / Jain, Anamika / Chaurasia, Deepti / Shrivastava, Rakesh / Kapoor, Garima / Perumal, Nagaraj / Agarwal, Ankita

Indian journal of medical microbiology

2024 Volume 49, Page(s) 100572

Abstract: Purpose: The present study was conducted retrospectively to assess the frequency of acute viral hepatitis among the clinically suspected dengue cases presented at our tertiary care centre during 2021.: Methods: To determine the presence of acute ... ...

Abstract	Purpose: The present study was conducted retrospectively to assess the frequency of acute viral hepatitis among the clinically suspected dengue cases presented at our tertiary care centre during 2021. Methods: To determine the presence of acute viral hepatitis; Hepatitis A virus (HAV) and Hepatitis E virus (HEV) infections, 104 specimens were selected from the dengue-suspected clinical specimens received during 2021 on the basis of acute viral hepatitis symptoms. Following this, serological diagnosis was performed on those samples using anti-HAV IgM and anti-HEV IgM ELISA kits. Results: Based on sero-positivity for IgM antibodies, 3 (5.3%) dengue virus (DENV) seropositive samples were positive for both HAV and HEV, while among DENV seronegative cases, 11 (22.91%) samples were positive for HEV and 1 (2.08%) sample was positive for HAV, pointing towards misdiagnosis due to overlapping symptoms. Additionally, co-infection of HAV & HEV in 1 sample was also observed in this study. Conclusions: This study revealed the presence of acute hepatitis infections among the dengue cases during monsoon and post-monsoon season. Overlapping of the clinical manifestations of these diseases can create misdiagnosis incidences raising risk for underreporting of the true cases of acute viral hepatitis infection. Dengue-suspected patients with selected symptoms during the monsoon and post-monsoon season should additionally be screened for acute hepatitis infections, as suggested in this study.
Language	English
Publishing date	2024-03-29
Publishing country	United States
Document type	Journal Article
ZDB-ID	1038798-5
ISSN	1998-3646 ; 0255-0857
ISSN (online)	1998-3646
ISSN	0255-0857
DOI	10.1016/j.ijmmb.2024.100572
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Performance comparison of commercial RNA extraction kits for the diagnosis of SARS-CoV-2

Nagaraj Perumal / Rajeev Kumar Jain / Archa Sharma / Deepti Chaurasia

Journal of Clinical and Scientific Research, Vol 10, Iss 3, Pp 157-

A laboratory perspective

2021 Volume 159

Abstract: Introduction: The COVID-19 pandemic has resulted in an increased need for molecular diagnostics. Ribonucleic acid (RNA) extraction is a crucial step in the detection of severe acute respiratory syndrome coronavirus-2 (SARS-COV-2). The resulting outcome ... ...

Abstract	Introduction: The COVID-19 pandemic has resulted in an increased need for molecular diagnostics. Ribonucleic acid (RNA) extraction is a crucial step in the detection of severe acute respiratory syndrome coronavirus-2 (SARS-COV-2). The resulting outcome depends on the performance of the RNA extraction kit used. Methods: This study evaluated the efficiency of four different commercial RNA extraction kits for the detection of SARS-COV 2. The reproducibility and performance efficiency of each kit were assessed and compared. The performance, processing time and storage conditions were also considered in the evaluation. Results: A slightly lesser cycle threshold (Ct) values were observed in RNA extracted using HiPurA Viral RNA Purification Kit. Invitrogen PureLink RNA Mini Kit was found to be time-saving and user-friendly. Conclusions: All the RNA isolation kit yielded the best results; however, if time is the important considerations, Invitrogen PureLink RNA Mini Kit has the shortest processing time.
Keywords	covid-19 ; rna ; sars-cov-2 ; Medicine ; R
Subject code	630
Language	English
Publishing date	2021-01-01T00:00:00Z
Publisher	Wolters Kluwer Medknow Publications
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Stability of SARS-CoV-2 RNA in Viral Lysis Buffer Stored at Different Temperatures.

Perumal, Nagaraj / Jain, Rajeev Kumar / Shrivastava, Rakesh / Lalwani, Jaya / Chaurasia, Deepti

Journal of laboratory physicians

2020 Volume 12, Issue 4, Page(s) 268–270

Abstract: ... ...

Abstract	Objectives
Language	English
Publishing date	2020-12-30
Publishing country	Germany
Document type	Journal Article
ZDB-ID	2461120-7
ISSN	0974-7826 ; 0974-2727
ISSN (online)	0974-7826
ISSN	0974-2727
DOI	10.1055/s-0040-1722551
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: A Study on Seroprevalence of Hepatotropic Viruses in Neonatal Cholestasis Patients at a Tertiary Care Hospital of Central India

Nagaraj Perumal / Deepti Chaurasia / Rajeev Kumar Jain / Jyostna Srivastava

Indian Journal of Neonatal Medicine and Research, Vol 9, Iss 1, Pp PO40-PO

2021 Volume 43

Abstract: Introduction: Neonatal Cholestasis (NC) is defined as conjugated hyperbilirubinemia in infancy and diverse aetiologies and several disorders are responsible for this hepatobiliary dysfunction. Hepatotropic viral infection may have an important role in ... ...

Abstract	Introduction: Neonatal Cholestasis (NC) is defined as conjugated hyperbilirubinemia in infancy and diverse aetiologies and several disorders are responsible for this hepatobiliary dysfunction. Hepatotropic viral infection may have an important role in the pathogenesis of NC and related clinical outcomes. Aim: Hence, this study was aimed to estimate the seroprevalence of the hepatotropic viruses and their possible role in neonates presenting with cholestatic jaundice. Materials and Methods: This retrospective study included 51 infants who were presented with cholestatic jaundice. Serum samples were collected and screened for the hepatotropic viruses. The presence of serological markers to Cytomegalovirus (CMV), Epstein-Barr Virus (EBV), Hepatitis C (HCV), Hepatitis E (HEV), Herpes Simplex Virus (HSV) and Rubella were tested using enzyme-linked immunosorbent assays. Hepatitis B Virus (HBV) serostatus was determined by using rapid card tests. Results: Of the 51 cases, 4 (7.6%) patients presented with biliary atresia. Seroprevalence of CMV (23.5%) was found to be more predominant followed by EBV (13.7%), HCV (5.8%), HEV (5.8%), HSV (1.9%) and Rubella (1.9%). Co-infections were found in 7 (13.7%) cases and CMV-EBV co-infection being the most common. Conclusion: The presence of specific serological markers to hepatotropic viruses in the NC cases strongly suggests their aetiological role in this disorder. To the best of our knowledge, this is the first report documenting the seroprevalence of hepatotropic viruses in NC patients from Central India.
Keywords	biliary atresia ; cholestatic jaundice ; congenital viral infection ; infants ; Medicine ; R ; Pediatrics ; RJ1-570
Subject code	610
Language	English
Publishing date	2021-01-01T00:00:00Z
Publisher	JCDR Research and Publications Pvt. Ltd.
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Performance Evaluation of Different RT-PCR Kits for the Direct Detection of SARS-CoV-2 in Preheated Specimens

Rajeev Kumar Jain / Nagaraj Perumal / Deepti Chaurasia / Rakesh Shrivastava / Kamlesh Kumar Ahirwar / Archa Sharma / Garima Kapoor / Jaya Lalwani

Journal of Laboratory Physicians (2023)

2023

Abstract: Background Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pandemic has created high demand for molecular kits and consumables for mass screening of suspected individuals. Direct real-time polymerase chain reaction (RT-PCR) assay without ... ...

Abstract	Background Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pandemic has created high demand for molecular kits and consumables for mass screening of suspected individuals. Direct real-time polymerase chain reaction (RT-PCR) assay without nucleic acid extraction has several advantages in saving testing time and cost and helps in the rapid reporting of SARS-CoV-2. The present study evaluated the analytical performance of four SARS-CoV-2 RT-PCR for direct RT-PCR testing using preheated specimens. Methods A total of 100 clinical specimens were selected and divided into three different groups: (1) group I: 20 SARS-CoV-2 positive specimens with high viral load, viz., low Ct values (< 30 Ct), (2) group II: 50 SARS-CoV-2 positive specimens with low viral load, viz., high Ct values (> 30 Ct), and (3) group III: 30 SARS-CoV-2 negative specimens. Specimens were heat-inactivated at 70°C for 10 minutes and cooled down at 4°C and were evaluated for standard and direct RT-PCR method by using ViralDtect-II Multiplex Real-Time PCR kit, TaqPath COVID-19 Combo kit, COVIDsure Pro Multiplex RT-PCR kit, and Hi-PCR Coronavirus (COVID-19) Multiplex Probe PCR kit. Results Results showed that except ViralDtect-II kit, the other three TaqPath COVID-19 Combo kit, COVIDsure Pro kit, and Hi-PCR Coronavirus (COVID-19) RT-PCR kit were able to amplify all the SARS-CoV-2 genes in the direct RT-PCR method using preheated specimens. In group I specimens, 100% sensitivity was observed in all three RT-PCR kits. In group II specimens, COVIDsure Pro kit was found to be superior among other kits. Conclusion Direct RT-PCR method during pandemic situation is valuable and cost effective for the detection of SARS-CoV-2. All three TaqPath COVID-19 Combo kit, COVIDsure Pro kit, and Hi-PCR Coronavirus (COVID-19) RT-PCR kit can be used for direct RT-PCR method and COVIDsure Pro kit performance was found to be superior among all.
Keywords	covid-19 disease ; direct rt-pcr ; preheated ; rna extraction ; sars cov-2 ; Medicine ; R
Subject code	630 ; 616
Language	English
Publishing date	2023-01-01T00:00:00Z
Publisher	Thieme Medical and Scientific Publishers Pvt. Ltd.
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Investigation of Different Commercially Available Real Time-Polymerase Chain Reaction Kits for SARS-CoV-2 Diagnosis

RAJEEV KUMAR JAIN / NAGARAJ PERUMAL / RAKESH SHRIVASTAVA / KAMLESH KUMAR AHIRWAR / JAYA LALWANI / DEEPTI CHAURASIA

Journal of Clinical and Diagnostic Research, Vol 15, Iss 6, Pp DC09-DC

2021 Volume 12

Abstract: Introduction: The whole world is facing an ongoing global health emergency of COVID-19 disease caused by the SARS-CoV-2. Real-Time Reverse Transcription-Polymerase Chain Reaction (RT-PCR) is a gold standard in the detection of SARS-CoV-2 infection. ... ...

Abstract	Introduction: The whole world is facing an ongoing global health emergency of COVID-19 disease caused by the SARS-CoV-2. Real-Time Reverse Transcription-Polymerase Chain Reaction (RT-PCR) is a gold standard in the detection of SARS-CoV-2 infection. Presently, many single tube multiple gene target RTPCR kits have been developed and are commercially available for Corona Virus Disease 2019 (COVID-19) diagnosis. Aim: To evaluate the performance of seven COVID-19 RT-PCR kits (DiagSure, Meril, VIRALDTECT II, TruPCR, Q-line, Allplex and TaqPath) which are commercially available for COVID-19 RT-PCR diagnosis. Materials and Methods: This observational study was conducted at the State Virology Laboratory (SVL), Gandhi Medical College, Bhopal, Madhya Pradesh, India. Seven commercially available kits have been evaluated on the basis of: (i) number of SARS-CoV-2 specific gene target; (ii) human housekeeping genes as internal control; (iii) RT-PCR run time; and (iv) kit performances to correctly detect SARS-CoV-2 positive and negative RNA samples. A total of 50 RNA samples (left over RNA) were included, master mix preparation, template addition and RT-PCR test has been performed according to kits literature. At the end of PCR run, mean and standard deviation of obtained cut-off of all kits were calculated using Microsoft Excel. Results: All seven RT-PCR kits performed satisfactory regarding the reproducibility and they could correctly identify 30 positive and 20 negative RNA samples. RNA samples (group C) having low viral loads with a high Cycle threshold (Ct) value (>30) were also detected by all these seven kits. Obtained Ct values of each group was in parallel range in comparison with the initial testing Ct values. Kits were found to be superior which contains primers and probes for three SARS-CoV-2 specific gene targets, have human housekeeping gene as internal control and taking less time to complete RT-PCR. Conclusion: All seven COVID-19 RT-PCR kits included in this study demonstrated satisfactory performance and can ...
Keywords	corona virus disease 2019 ; genes ; ribonucleic acid ; Medicine ; R
Subject code	630
Language	English
Publishing date	2021-06-01T00:00:00Z
Publisher	JCDR Research and Publications Private Limited
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Incidence of Non Amplification of N Gene of SARS-CoV-2 using Commercially Available Real Time Polymerase Chain Reaction Kit and its Comparison with Two Other Different Kits

Rajeev Kumar Jain / Nagaraj Perumal / Deepti Chaurasia / Kamlesh Kumar Ahirwar / Archa Sharma / Rakesh Shrivastava / Jaya Lalwani

Journal of Clinical and Diagnostic Research, Vol 16, Iss 2, Pp DM01-DM

2022 Volume 04

Abstract: Introduction: Novel Coronavirus Disease-2019 (COVID-19) caused by the Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2) has resulted in an unprecedented global pandemic. Real Time Polymerase Chain Reaction (RT-PCR) tests are being used in the ... ...

Abstract	Introduction: Novel Coronavirus Disease-2019 (COVID-19) caused by the Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2) has resulted in an unprecedented global pandemic. Real Time Polymerase Chain Reaction (RT-PCR) tests are being used in the diagnosis of COVID-19 worldwide however mutations in the SARS-CoV-2 genome have generated many SARS-CoV-2 genome variants and which may affect the correct Reverse transcriptase-Real time Polymerase Chain Reaction (RT-PCR) diagnosis. Aim: To confirm and study the incidence of the non amplification of the SARS-CoV-2 Nucleocapsid gene (N gene) target among known SARS-CoV-2 positive samples. Materials and Methods: This retrospective observational study was carried out at the State Virology Laboratory, Gandhi Medical College, Bhopal, Madhya Pradesh, India, during January to May 2021. During the study period, a total of 159 SARS-CoV-2 positive samples were failed to amplify the N gene target. To investigate the non amplification of N gene target of SARS-CoV-2, a total of 20 samples were selected and retested using the initially used RT-PCR kit (VIRALDTECT RT-PCR kit) and also with the two different RT-PCR kits (TaqPath RT-PCR kit and Hi-PCR RT-PCR kit) which also contain primers/probes for the SARS-CoV-2 N gene target. Results: Amplification and detection of the SARS-CoV-2 N target gene was not observed in VIRALDTECT RT-PCR test results. In contrast, amplification was detected in the N gene target of SARS-CoV-2 while using the TaqPath and Hi-PCR kits. Obtained results confirm the failure of the annealing of VIRALDTECT kit N gene primer/probe and suggest the possible mutation event in the SARS-CoV-2 N gene among the N gene non amplified samples. Conclusion: Present study reports, the incidence of non amplification of SARS-CoV-2 N gene, where the RT-PCR kit failed to detect N gene target and seriously affect RT-PCR diagnosis. Hence, the study emphasises the revalidation of commercially available SARS-CoV-2, RT-PCR kits to identify these kinds of failure incidence.
Keywords	false negativity ; gene mutation ; severe acute respiratory syndrome coronavirus-2 ; sequencing ; Medicine ; R
Subject code	572
Language	English
Publishing date	2022-02-01T00:00:00Z
Publisher	JCDR Research and Publications Private Limited
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Decoding the microbiome and metabolome of the Panchagavya—An indigenous fermented bio‐formulation

Prasannakumar Muthukapalli Krishnareddy / Mahesh Hirehally Basavarajegowda / Parivallal Perumal Buela / Pramesh Devanna / Puneeth Makali Eregowda / Aditya Narayan Sarangi / Manasa Kodihalli Govindaraju / Sushil Kumar Middha / Sahana Nagaraj Banakar

iMeta, Vol 1, Iss 4, Pp n/a-n/a (2022)

2022

Keywords	Computer applications to medicine. Medical informatics ; R858-859.7
Language	English
Publishing date	2022-12-01T00:00:00Z
Publisher	Wiley
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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