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  1. Article ; Online: Rapid and zero-cost DNA extraction from soft-bodied insects for routine PCR-based applications.

    Jangra, Sumit / Ghosh, Amalendu

    PloS one

    2022  Volume 17, Issue 7, Page(s) e0271312

    Abstract: Nucleic acid extraction is the first and foremost step in molecular biology studies. Extraction of DNA from small, soft-bodied insects is often time-consuming and costly. A fast, easy, and cost-effective DNA extraction method with greater yield and ... ...

    Abstract Nucleic acid extraction is the first and foremost step in molecular biology studies. Extraction of DNA from small, soft-bodied insects is often time-consuming and costly. A fast, easy, and cost-effective DNA extraction method with greater yield and purity of DNA would aid in the rapid diagnostics, screening of large populations, and other routine PCR-based applications. The present study evaluated and standardized a rapid and zero-cost DNA extraction from soft-bodied small insects for routine molecular studies. Five rapid DNA extraction methods viz. extraction in sterile distilled water (SDW), 1X phosphate-buffered saline (PBS, pH 7.4), 1.4 M sodium chloride (NaCl), 20 mM ethylenediaminetetraacetic acid (EDTA, pH 8.0), and elution from blotted nitrocellulose membrane (NCM) were compared with standard CTAB extraction buffer and DNeasy® Blood and Tissue Kit methods. The average yield, purity, storage stability, time, and cost of extraction were assessed for all the methods and compared. A method of DNA extraction by simply crushing the soft-bodied insects in SDW was ideal in terms of yield, purity, storability, and performing routine PCR-based applications including detection of pathogens from vector species. The extraction could be accomplished in 2.5 min only with zero-reagent cost. The method would be useful in rapid molecular diagnostics and screening large populations of soft-bodied insects.
    MeSH term(s) Animals ; DNA/genetics ; Insecta/genetics ; Nucleic Acid Amplification Techniques ; Nucleic Acids ; Polymerase Chain Reaction/methods
    Chemical Substances Nucleic Acids ; DNA (9007-49-2)
    Language English
    Publishing date 2022-07-15
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2267670-3
    ISSN 1932-6203 ; 1932-6203
    ISSN (online) 1932-6203
    ISSN 1932-6203
    DOI 10.1371/journal.pone.0271312
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Effect of silencing

    Thesnim, Pathukandathil / Jangra, Sumit / Kumar, Manish / Ghosh, Amalendu

    Frontiers in plant science

    2023  Volume 14, Page(s) 1136262

    Abstract: ... Bemisia ... ...

    Abstract Bemisia tabaci
    Language English
    Publishing date 2023-03-14
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2613694-6
    ISSN 1664-462X
    ISSN 1664-462X
    DOI 10.3389/fpls.2023.1136262
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: Effect of silencing

    Rajesh, Vavilapalli / Jangra, Sumit / Ghosh, Amalendu

    Frontiers in microbiology

    2023  Volume 14, Page(s) 1254246

    Abstract: ... Thrips ... ...

    Abstract Thrips palmi
    Language English
    Publishing date 2023-10-19
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2587354-4
    ISSN 1664-302X
    ISSN 1664-302X
    DOI 10.3389/fmicb.2023.1254246
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Geographical Expansion of Avian Metapneumovirus Subtype B: First Detection and Molecular Characterization of Avian Metapneumovirus Subtype B in US Poultry.

    Luqman, Muhammad / Duhan, Naveen / Temeeyasen, Gun / Selim, Mohamed / Jangra, Sumit / Mor, Sunil Kumar

    Viruses

    2024  Volume 16, Issue 4

    Abstract: Avian metapneumovirus (aMPV), classified within ... ...

    Abstract Avian metapneumovirus (aMPV), classified within the
    MeSH term(s) Animals ; Metapneumovirus/genetics ; Metapneumovirus/classification ; Metapneumovirus/isolation & purification ; Paramyxoviridae Infections/veterinary ; Paramyxoviridae Infections/virology ; Paramyxoviridae Infections/epidemiology ; Poultry Diseases/virology ; Poultry Diseases/epidemiology ; Phylogeny ; Turkeys/virology ; Genome, Viral ; United States/epidemiology ; Chickens/virology ; Poultry/virology ; Metagenomics ; Disease Outbreaks/veterinary
    Language English
    Publishing date 2024-03-26
    Publishing country Switzerland
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2516098-9
    ISSN 1999-4915 ; 1999-4915
    ISSN (online) 1999-4915
    ISSN 1999-4915
    DOI 10.3390/v16040508
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: MicroRNA Identification, Target Prediction, and Validation for Crop Improvement.

    Chaudhary, Vrantika / Jangra, Sumit / Mishra, Apurva / Yadav, Neelam R

    Methods in molecular biology (Clifton, N.J.)

    2023  Volume 2630, Page(s) 13–24

    Abstract: Micro-RNAs (mi-RNAs) are regulatory elements that play a vital role in the growth, development, and metabolic regulation of plants. In current research, the isolation of miRNAs is a tedious and difficult task using in vitro methods. However, recent ... ...

    Abstract Micro-RNAs (mi-RNAs) are regulatory elements that play a vital role in the growth, development, and metabolic regulation of plants. In current research, the isolation of miRNAs is a tedious and difficult task using in vitro methods. However, recent exploration into the remarkably highly conserved nature of nucleotide sequences of miRNAs assists in the identification of miRNAs in plant species through homologous approaches. Here, we describe the in silico-based method for identification of miRNAs from the EST database which is emerging as a faster and more reliable approach along with the development of miRNA-SSR markers. This approach has the potential to accelerate research into the regulation of gene expression in various plant species such as tea, potato, tomato, tobacco, and orphan crops like cluster bean.
    MeSH term(s) MicroRNAs/genetics ; Base Sequence ; Plants/genetics ; Nicotiana/genetics ; Gene Expression Regulation, Plant ; RNA, Plant/genetics
    Chemical Substances MicroRNAs ; RNA, Plant
    Language English
    Publishing date 2023-01-23
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ISSN 1940-6029
    ISSN (online) 1940-6029
    DOI 10.1007/978-1-0716-2982-6_2
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article: In silico

    Chaudhary, Vrantika / Jangra, Sumit / Yadav, Neelam R

    Frontiers in genetics

    2022  Volume 13, Page(s) 930113

    Abstract: Cluster bean popularly known as "guar" is a drought-tolerant, annual legume that has recently emerged as an economically important crop, owing to its high protein and gum content. The guar gum has wide range of applications in food, pharma, and mining ... ...

    Abstract Cluster bean popularly known as "guar" is a drought-tolerant, annual legume that has recently emerged as an economically important crop, owing to its high protein and gum content. The guar gum has wide range of applications in food, pharma, and mining industries. India is the leading exporter of various cluster bean-based products all across the globe. Non-coding RNAs (miRNAs) are involved in regulating the expression of the target genes leading to variations in the associated pathways or final protein concentrations. The understanding of miRNAs and their associated targets in cluster bean is yet to be used to its full potential. In the present study, cluster bean EST (Expressed Sequence Tags) database was exploited to identify the miRNA and their predicted targets associated with metabolic and biological processes especially response to diverse biotic and abiotic stimuli using
    Language English
    Publishing date 2022-06-30
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2606823-0
    ISSN 1664-8021
    ISSN 1664-8021
    DOI 10.3389/fgene.2022.930113
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: High-Throughput Phenotyping: A Platform to Accelerate Crop Improvement.

    Jangra, Sumit / Chaudhary, Vrantika / Yadav, Ram C / Yadav, Neelam R

    Phenomics (Cham, Switzerland)

    2021  Volume 1, Issue 2, Page(s) 31–53

    Abstract: Development of high-throughput phenotyping technologies has progressed considerably in the last 10 years. These technologies provide precise measurements of desired traits among thousands of field-grown plants under diversified environments; this is a ... ...

    Abstract Development of high-throughput phenotyping technologies has progressed considerably in the last 10 years. These technologies provide precise measurements of desired traits among thousands of field-grown plants under diversified environments; this is a critical step towards selection of better performing lines as to yield, disease resistance, and stress tolerance to accelerate crop improvement programs. High-throughput phenotyping techniques and platforms help unraveling the genetic basis of complex traits associated with plant growth and development and targeted traits. This review focuses on the advancements in technologies involved in high-throughput, field-based, aerial, and unmanned platforms. Development of user-friendly data management tools and softwares to better understand phenotyping will increase the use of field-based high-throughput techniques, which have potential to revolutionize breeding strategies and meet the future needs of stakeholders.
    Language English
    Publishing date 2021-05-11
    Publishing country Switzerland
    Document type Journal Article ; Review
    ISSN 2730-5848
    ISSN (online) 2730-5848
    DOI 10.1007/s43657-020-00007-6
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article: Frontiers Approaches to the Diagnosis of Thrips (Thysanoptera): How Effective Are the Molecular and Electronic Detection Platforms?

    Ghosh, Amalendu / Jangra, Sumit / Dietzgen, Ralf G / Yeh, Wen-Bin

    Insects

    2021  Volume 12, Issue 10

    Abstract: Thrips are insect pests of economically important agricultural, horticultural, and forest crops. They cause damage by sucking plant sap and by transmitting several tospoviruses, ilarviruses, carmoviruses, sobemoviruses, and machlomoviruses. Accurate and ... ...

    Abstract Thrips are insect pests of economically important agricultural, horticultural, and forest crops. They cause damage by sucking plant sap and by transmitting several tospoviruses, ilarviruses, carmoviruses, sobemoviruses, and machlomoviruses. Accurate and timely identification is the key to successful management of thrips species. However, their small size, cryptic nature, presence of color and reproductive morphs, and intraspecies genetic variability make the identification of thrips species challenging. The use of molecular and electronic detection platforms has made thrips identification rapid, precise, sensitive, high throughput, and independent of developmental stages. Multi-locus phylogeny based on mitochondrial, nuclear, and other markers has resolved ambiguities in morphologically indistinguishable thrips species. Microsatellite, RFLP, RAPD, AFLP, and CAPS markers have helped to explain population structure, gene flow, and intraspecies heterogeneity. Recent techniques such as LAMP and RPA have been employed for sensitive and on-site identification of thrips. Artificial neural networks and high throughput diagnostics facilitate automated identification. This review also discusses the potential of pyrosequencing, microarrays, high throughput sequencing, and electronic sensors in delimiting thrips species.
    Language English
    Publishing date 2021-10-09
    Publishing country Switzerland
    Document type Journal Article ; Review
    ISSN 2075-4450
    ISSN 2075-4450
    DOI 10.3390/insects12100920
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article: Development of a Polymerase Spiral Reaction-Based Isothermal Assay for Rapid Identification of

    Jangra, Sumit / Ghosh, Amalendu / Mukherjee, Sunil / Baranwal, Virendra Kumar / Dietzgen, Ralf G

    Frontiers in molecular biosciences

    2022  Volume 9, Page(s) 853339

    Abstract: Thrips cause considerable economic losses to a wide range of food, feed, and forest crops. They also transmit several plant viruses. Being cryptic, it is often difficult to distinguish thrips species in crops and large consignments by conventional ... ...

    Abstract Thrips cause considerable economic losses to a wide range of food, feed, and forest crops. They also transmit several plant viruses. Being cryptic, it is often difficult to distinguish thrips species in crops and large consignments by conventional methods. Melon thrips (
    Language English
    Publishing date 2022-05-02
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2814330-9
    ISSN 2296-889X
    ISSN 2296-889X
    DOI 10.3389/fmolb.2022.853339
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article: Frontiers Approaches to the Diagnosis of Thrips (Thysanoptera): How Effective Are the Molecular and Electronic Detection Platforms?

    Ghosh, Amalendu / Jangra, Sumit / Dietzgen, Ralf G. / Yeh, Wen-Bin

    Insects. 2021 Oct. 09, v. 12, no. 10

    2021  

    Abstract: Thrips are insect pests of economically important agricultural, horticultural, and forest crops. They cause damage by sucking plant sap and by transmitting several tospoviruses, ilarviruses, carmoviruses, sobemoviruses, and machlomoviruses. Accurate and ... ...

    Abstract Thrips are insect pests of economically important agricultural, horticultural, and forest crops. They cause damage by sucking plant sap and by transmitting several tospoviruses, ilarviruses, carmoviruses, sobemoviruses, and machlomoviruses. Accurate and timely identification is the key to successful management of thrips species. However, their small size, cryptic nature, presence of color and reproductive morphs, and intraspecies genetic variability make the identification of thrips species challenging. The use of molecular and electronic detection platforms has made thrips identification rapid, precise, sensitive, high throughput, and independent of developmental stages. Multi-locus phylogeny based on mitochondrial, nuclear, and other markers has resolved ambiguities in morphologically indistinguishable thrips species. Microsatellite, RFLP, RAPD, AFLP, and CAPS markers have helped to explain population structure, gene flow, and intraspecies heterogeneity. Recent techniques such as LAMP and RPA have been employed for sensitive and on-site identification of thrips. Artificial neural networks and high throughput diagnostics facilitate automated identification. This review also discusses the potential of pyrosequencing, microarrays, high throughput sequencing, and electronic sensors in delimiting thrips species.
    Keywords Carmovirus ; Ilarvirus ; Sobemovirus ; Thysanoptera ; Tospoviridae ; automation ; color ; diagnostic techniques ; forests ; gene flow ; genetic variation ; high-throughput nucleotide sequencing ; horticulture ; microarray technology ; microsatellite repeats ; mitochondria ; phylogeny ; population structure ; sap
    Language English
    Dates of publication 2021-1009
    Publishing place Multidisciplinary Digital Publishing Institute
    Document type Article
    ZDB-ID 2662247-6
    ISSN 2075-4450
    ISSN 2075-4450
    DOI 10.3390/insects12100920
    Database NAL-Catalogue (AGRICOLA)

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