LIVIVO - The Search Portal for Life Sciences

zur deutschen Oberfläche wechseln
Advanced search

Search results

Result 1 - 10 of total 193

Search options

  1. Book ; Online: Spatio-Temporal driven Attention Graph Neural Network with Block Adjacency matrix (STAG-NN-BA)

    Nazir, U. / Islam, W. / Taj, M.

    2023  

    Abstract: Despite the recent advances in deep neural networks, standard convolutional kernels limit the applications of these networks to the Euclidean domain only. Considering the geodesic nature of the measurement of the earth's surface, remote sensing is one ... ...

    Abstract Despite the recent advances in deep neural networks, standard convolutional kernels limit the applications of these networks to the Euclidean domain only. Considering the geodesic nature of the measurement of the earth's surface, remote sensing is one such area that can benefit from non-Euclidean and spherical domains. For this purpose, we propose a novel Graph Neural Network architecture for spatial and spatio-temporal classification using satellite imagery. We propose a hybrid attention method to learn the relative importance of irregular neighbors in remote sensing data. Instead of classifying each pixel, we propose a method based on Simple Linear Iterative Clustering (SLIC) image segmentation and Graph Attention GAT. The superpixels obtained from SLIC become the nodes of our Graph Convolution Network (GCN). We then construct a region adjacency graph (RAG) where each superpixel is connected to every other adjacent superpixel in the image, enabling information to propagate globally. Finally, we propose a Spatially driven Attention Graph Neural Network (SAG-NN) to classify each RAG. We also propose an extension to our SAG-NN for spatio-temporal data. Unlike regular grids of pixels in images, superpixels are irregular in nature and cannot be used to create spatio-temporal graphs. We introduce temporal bias by combining unconnected RAGs from each image into one supergraph. This is achieved by introducing block adjacency matrices resulting in novel Spatio-Temporal driven Attention Graph Neural Network with Block Adjacency matrix (STAG-NN-BA). We evaluate our proposed methods on two remote sensing datasets namely Asia14 and C2D2. In comparison with both non-graph and graph-based approaches our SAG-NN and STAG-NN-BA achieved superior accuracy on all the datasets while incurring less computation cost. The code and dataset will be made public via our GitHub repository.
    Keywords Computer Science - Computer Vision and Pattern Recognition
    Subject code 006
    Publishing date 2023-03-24
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    More links

    Kategorien

  2. Article ; Online: CRISPR-Cas9; an efficient tool for precise plant genome editing.

    Islam, Waqar

    Molecular and cellular probes

    2018  Volume 39, Page(s) 47–52

    Abstract: Efficient plant genome editing is dependent upon induction of double stranded DNA breaks (DSBs) through site specified nucleases. These DSBs initiate the process of DNA repair which can either base upon homologous recombination (HR) or non-homologous end ...

    Abstract Efficient plant genome editing is dependent upon induction of double stranded DNA breaks (DSBs) through site specified nucleases. These DSBs initiate the process of DNA repair which can either base upon homologous recombination (HR) or non-homologous end jointing (NHEJ). Recently, CRISPR-Cas9 mechanism got highlighted as revolutionizing genetic tool due to its simpler frame work along with the broad range of adaptability and applications. So, in this review, I have tried to sum up the application of this biotechnological tool in plant genome editing. Furthermore, I have tried to explain successful adaptation of CRISPR in various plant species where it is used for the successful generation of stable mutations in a steadily growing number of species through NHEJ. The review also sheds light upon other biotechnological approaches relying upon single DNA lesion induction such as genomic deletion or pair wise nickases for evasion of offsite effects.
    MeSH term(s) CRISPR-Associated Protein 9/metabolism ; CRISPR-Cas Systems/genetics ; Gene Editing/methods ; Genetic Engineering ; Genome, Plant
    Chemical Substances CRISPR-Associated Protein 9 (EC 3.1.-)
    Language English
    Publishing date 2018-04-03
    Publishing country England
    Document type Journal Article ; Review
    ZDB-ID 639082-1
    ISSN 1096-1194 ; 0890-8508
    ISSN (online) 1096-1194
    ISSN 0890-8508
    DOI 10.1016/j.mcp.2018.03.006
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

  3. Article: Unveiling the diversity, composition, and dynamics of phyllosphere microbial communities in

    Zhang, Yulin / Du, Yi / Zhang, Zhihao / Islam, Waqar / Zeng, Fanjiang

    Frontiers in microbiology

    2024  Volume 15, Page(s) 1361756

    Abstract: Phyllosphere microbes residing on plant leaf surfaces for maintaining plant health have gained increasing recognition. However, in desert ecosystems, knowledge about the variety, composition, and coexistence patterns of microbial communities in the ... ...

    Abstract Phyllosphere microbes residing on plant leaf surfaces for maintaining plant health have gained increasing recognition. However, in desert ecosystems, knowledge about the variety, composition, and coexistence patterns of microbial communities in the phyllosphere remains limited. This study, conducted across three basins (Turpan-TLF, Tarim-CL, and Dzungaria-MSW) and three seasons (spring, summer, and autumn) in Xinjiang, China, aimed to explore the diversity and composition of microbial communities in the phyllosphere, encompassing both bacteria and fungi in
    Language English
    Publishing date 2024-03-25
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2587354-4
    ISSN 1664-302X
    ISSN 1664-302X
    DOI 10.3389/fmicb.2024.1361756
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

  4. Article ; Online: Dynamics of soil biota and nutrients at varied depths in a Tamarix ramosissima-dominated natural desert ecosystem: Implications for nutrient cycling and desertification management.

    Islam, Waqar / Zeng, Fanjiang / Ahmed Dar, Afzal / Sohail Yousaf, Muhammad

    Journal of environmental management

    2024  Volume 354, Page(s) 120217

    Abstract: The underground community of soil organisms, known as soil biota, plays a critical role in terrestrial ecosystems. Different ecosystems exhibit varied responses of soil organisms to soil physical and chemical properties (SPCPs). However, our ... ...

    Abstract The underground community of soil organisms, known as soil biota, plays a critical role in terrestrial ecosystems. Different ecosystems exhibit varied responses of soil organisms to soil physical and chemical properties (SPCPs). However, our understanding of how soil biota react to different soil depths in naturally established population of salinity tolerant Tamarix ramosissima in desert ecosystems, remains limited. To address this, we employed High-Throughput Illumina HiSeq Sequencing to examine the population dynamics of soil bacteria, fungi, archaea, protists, and metazoa at six different soil depths (0-100 cm) in the naturally occurring T. ramosissima dominant zone within the Taklimakan desert of China. Our observations reveal that the alpha diversity of bacteria, fungi, metazoa, and protists displayed a linear decrease with the increase of soil depth, whereas archaea exhibited an inverse pattern. The beta diversity of soil biota, particularly metazoa, bacteria, and protists, demonstrated noteworthy associations with soil depths through Non-Metric Dimensional Scaling analysis. Among the most abundant classes of soil organisms, we observed Actinobacteria, Sordariomycetes, Halobacteria, Spirotrichea, and Nematoda for bacteria, fungi, archaea, protists, and metazoa, respectively. Additionally, we identified associations between the vertical distribution of dominant biotic communities and SPCPs. Bacterial changes were mainly influenced by total potassium, available phosphorus (AP), and soil water content (SWC), while fungi were impacted by nitrate (NO
    MeSH term(s) Ecosystem ; Soil/chemistry ; Tamaricaceae ; Conservation of Natural Resources ; Archaea/genetics ; Bacteria ; Biota ; Nutrients ; Fungi ; Potassium ; Soil Microbiology
    Chemical Substances Soil ; Potassium (RWP5GA015D)
    Language English
    Publishing date 2024-02-09
    Publishing country England
    Document type Journal Article
    ZDB-ID 184882-3
    ISSN 1095-8630 ; 0301-4797
    ISSN (online) 1095-8630
    ISSN 0301-4797
    DOI 10.1016/j.jenvman.2024.120217
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

  5. Article ; Online: Response of total belowground soil biota in Alhagi sparsifolia monoculture at different soil vertical profiles in desert ecosystem.

    Islam, Waqar / Ullah, Abd / Zeng, Fanjiang

    The Science of the total environment

    2023  Volume 901, Page(s) 166027

    Abstract: The soil organisms are extremely important for the land-based ecosystem. There is a growing interest in studying the variety and composition of the entire underground soil organism community at a large ecological scale. Soil organisms show different ... ...

    Abstract The soil organisms are extremely important for the land-based ecosystem. There is a growing interest in studying the variety and composition of the entire underground soil organism community at a large ecological scale. Soil organisms show different patterns in relation to soil physiochemical properties (SPPs) in various ecosystems. However, there is limited knowledge regarding their response to soil vertical profiles (SVPs) in monoculture of Alhagi sparsifolia, which is the primary shrub in the deserts of China, and is well-known for its contributions to sand dune stabilization, traditional Chinese medicine, and forage. Here, we investigated the population dynamics of soil bacteria, fungi, archaea, protists and metazoa across six different SVPs ranging from 0 to 100 cm in monoculture of A. sparsifolia, in its natural desert ecosystem. Our findings indicate that the soil biota communities displayed a declining pattern in the alpha diversity of bacteria, protists, and metazoa with an increase in soil depth. However, the opposite trend was observed for fungi and archaea. The beta diversity of soil biota was significantly affected by SVPs, particularly for metazoa, fungi and protists as revealed by Non-Metric Dimensional Scaling. The most prevalent soil bacterial, fungal, archaeal, protist, and metazoa classes were Actinobacteria, Sordariomycetes, Nitrososphaeria, Filosa-Sarcomonadea, and Nematoda, respectively. The correlation among vertical distribution of the most abundant biotic communities and variations in SPPs exhibited that the variations in total carbon (TC) and total nitrogen (TN) had the most significant influence on bacterial changes, while available potassium (AK) had an impact on fungi. Archaea were affected by TC and pH, protists by the C/N-Ratio and TP, and metazoa by TN, AK, and soil water capacity (SWC). Collectively, our findings provide a new perspective on the vertical distribution and distinct response patterns of soil biota in A. sparsifolia monoculture under natural desert ecosystem of China.
    Language English
    Publishing date 2023-08-02
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 121506-1
    ISSN 1879-1026 ; 0048-9697
    ISSN (online) 1879-1026
    ISSN 0048-9697
    DOI 10.1016/j.scitotenv.2023.166027
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

  6. Article ; Online: Response of total belowground soil biota in Alhagi sparsifolia monoculture at different soil vertical profiles in desert ecosystem

    Islam, Waqar / Ullah, Abd / Zeng, Fanjiang

    Science of the Total Environment. 2023 Nov., v. 901 p.166027-

    2023  

    Abstract: The soil organisms are extremely important for the land-based ecosystem. There is a growing interest in studying the variety and composition of the entire underground soil organism community at a large ecological scale. Soil organisms show different ... ...

    Abstract The soil organisms are extremely important for the land-based ecosystem. There is a growing interest in studying the variety and composition of the entire underground soil organism community at a large ecological scale. Soil organisms show different patterns in relation to soil physiochemical properties (SPPs) in various ecosystems. However, there is limited knowledge regarding their response to soil vertical profiles (SVPs) in monoculture of Alhagi sparsifolia, which is the primary shrub in the deserts of China, and is well-known for its contributions to sand dune stabilization, traditional Chinese medicine, and forage. Here, we investigated the population dynamics of soil bacteria, fungi, archaea, protists and metazoa across six different SVPs ranging from 0 to 100 cm in monoculture of A. sparsifolia, in its natural desert ecosystem. Our findings indicate that the soil biota communities displayed a declining pattern in the alpha diversity of bacteria, protists, and metazoa with an increase in soil depth. However, the opposite trend was observed for fungi and archaea. The beta diversity of soil biota was significantly affected by SVPs, particularly for metazoa, fungi and protists as revealed by Non-Metric Dimensional Scaling. The most prevalent soil bacterial, fungal, archaeal, protist, and metazoa classes were Actinobacteria, Sordariomycetes, Nitrososphaeria, Filosa-Sarcomonadea, and Nematoda, respectively. The correlation among vertical distribution of the most abundant biotic communities and variations in SPPs exhibited that the variations in total carbon (TC) and total nitrogen (TN) had the most significant influence on bacterial changes, while available potassium (AK) had an impact on fungi. Archaea were affected by TC and pH, protists by the C/N-Ratio and TP, and metazoa by TN, AK, and soil water capacity (SWC). Collectively, our findings provide a new perspective on the vertical distribution and distinct response patterns of soil biota in A. sparsifolia monoculture under natural desert ecosystem of China.
    Keywords Actinobacteria ; Alhagi sparsifolia ; Archaea ; Nematoda ; Oriental traditional medicine ; Sordariomycetes ; carbon ; ecosystems ; environment ; forage ; fungi ; pH ; population dynamics ; potassium ; protists ; sand dune stabilization ; shrubs ; soil bacteria ; soil biota ; soil depth ; soil water ; spatial distribution ; species diversity ; total nitrogen ; China ; Soil microbiome ; Desert management ; Microbial diversity ; Soil animals ; Soil fertility
    Language English
    Dates of publication 2023-11
    Publishing place Elsevier B.V.
    Document type Article ; Online
    ZDB-ID 121506-1
    ISSN 1879-1026 ; 0048-9697
    ISSN (online) 1879-1026
    ISSN 0048-9697
    DOI 10.1016/j.scitotenv.2023.166027
    Database NAL-Catalogue (AGRICOLA)

    More links

    Kategorien

  7. Article: Film mulching counteracts the adverse effects of mild moisture deficiency, and improves the quality and yield of

    Ding, Ya / Zhang, Zhihao / Lu, Yan / Li, Li / Islam, Waqar / Zeng, Fanjiang

    Frontiers in plant science

    2024  Volume 15, Page(s) 1296641

    Abstract: Introduction: Plastic film mulching (PFM) and deficit irrigation (DI) are vital water-saving approaches in arid agriculture. : Method: Using randomized block experiment design. Three irrigation strategies were tested: CK (standard irrigation), RW20 ( ... ...

    Abstract Introduction: Plastic film mulching (PFM) and deficit irrigation (DI) are vital water-saving approaches in arid agriculture.
    Method: Using randomized block experiment design. Three irrigation strategies were tested: CK (standard irrigation), RW20 (20% water reduction), and RW40 (40% water reduction). Mulchin treatments included film mulching (FM) and no film mulching (NFM).
    Results: Results revealed substantial effects of film mulching and drip irrigation on soil nutrients and physical properties, with minor influence on grass, root, and tuber stoichiometry. PF treatment, DI treatments, and their interaction significantly affected
    Conclusion: Integrating soil traits, nutrients, yield, and quality, findings indicate
    Language English
    Publishing date 2024-04-22
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2613694-6
    ISSN 1664-462X
    ISSN 1664-462X
    DOI 10.3389/fpls.2024.1296641
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

  8. Article: Sustainable Pest Management in Date Palm Ecosystems: Unveiling the Ecological Dynamics of Red Palm Weevil (Coleoptera: Curculionidae) Infestations.

    Naveed, Hassan / Andoh, Vivian / Islam, Waqar / Chen, Liang / Chen, Keping

    Insects

    2023  Volume 14, Issue 11

    Abstract: The red palm weevil (RPW) poses a significant threat to date palm ecosystems, highlighting the necessity of sustainable pest management strategies that carefully consider the delicate ecological balance within these environments. This comprehensive ... ...

    Abstract The red palm weevil (RPW) poses a significant threat to date palm ecosystems, highlighting the necessity of sustainable pest management strategies that carefully consider the delicate ecological balance within these environments. This comprehensive review delves into innovative approaches to sustainable pest management, specifically focusing on date palm, and seeks to unravel the intricate ecological dynamics underlying RPW infestations. We thoroughly analyze biocontrol methods, eco-friendly chemical interventions, and integrated pest management (IPM) strategies, aiming to minimize the ecological impact while effectively addressing RPW infestations. By emphasizing the interplay of both living organisms (biotic) and environmental factors (abiotic) in shaping RPW dynamics, we advocate for a holistic and sustainable management approach that ensures the long-term resilience of date palm ecosystems. This review aims to contribute to an ecologically sound framework for pest management, promoting the sustainability and vitality of date palm ecosystems amidst the challenges posed by the RPW.
    Language English
    Publishing date 2023-11-06
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2662247-6
    ISSN 2075-4450
    ISSN 2075-4450
    DOI 10.3390/insects14110859
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

  9. Article ; Online: Plant responses to drought stress: microRNAs in action.

    Islam, Waqar / Idrees, Atif / Waheed, Abdul / Zeng, Fanjiang

    Environmental research

    2022  Volume 215, Issue Pt 2, Page(s) 114282

    Abstract: Drought is common in most regions of the world, and it has a significant impact on plant growth and development. Plants, on the other hand, have evolved their own defense systems to deal with the extreme weather. The reprogramming of gene expression by ... ...

    Abstract Drought is common in most regions of the world, and it has a significant impact on plant growth and development. Plants, on the other hand, have evolved their own defense systems to deal with the extreme weather. The reprogramming of gene expression by microRNAs (miRNAs) is one of these defense mechanisms. miRNAs are short noncoding RNAs that have emerged as key post-transcriptional gene regulators in a variety of species. Drought stress modulates the expression of certain miRNAs that are functionally conserved across plant species. These characteristics imply that miRNA-based genetic changes might improve drought resistance in plants. This study highlights current knowledge of plant miRNA biogenesis, regulatory mechanisms and their role in drought stress responses. miRNAs functions and their adaptations by plants during drought stress has also been explained that can be exploited to promote drought-resistance among economically important crops.
    MeSH term(s) Crops, Agricultural/metabolism ; Droughts ; Gene Expression Regulation, Plant ; MicroRNAs/genetics ; Stress, Physiological
    Chemical Substances MicroRNAs
    Language English
    Publishing date 2022-09-16
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 205699-9
    ISSN 1096-0953 ; 0013-9351
    ISSN (online) 1096-0953
    ISSN 0013-9351
    DOI 10.1016/j.envres.2022.114282
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

  10. Article ; Online: MicroRNAs Mediated Plant Responses to Salt Stress.

    Islam, Waqar / Waheed, Abdul / Naveed, Hassan / Zeng, Fanjiang

    Cells

    2022  Volume 11, Issue 18

    Abstract: One of the most damaging issues to cultivatable land is soil salinity. While salt stress influences plant growth and yields at low to moderate levels, severe salt stress is harmful to plant growth. Mineral shortages and toxicities frequently exacerbate ... ...

    Abstract One of the most damaging issues to cultivatable land is soil salinity. While salt stress influences plant growth and yields at low to moderate levels, severe salt stress is harmful to plant growth. Mineral shortages and toxicities frequently exacerbate the problem of salinity. The growth of many plants is quantitatively reduced by various levels of salt stress depending on the stage of development and duration of stress. Plants have developed various mechanisms to withstand salt stress. One of the key strategies is the utilization of microRNAs (miRNAs) that can influence gene regulation at the post-transcriptional stage under different environmental conditions, including salinity. Here, we have reviewed the miRNA-mediated adaptations of various plant species to salt stress and other abiotic variables. Moreover, salt responsive (SR)-miRNAs, their targets, and corresponding pathways have also been discussed. The review article concludes by suggesting that the utilization of miRNAs may be a vital strategy to generate salt tolerant crops ensuring food security in the future.
    MeSH term(s) Gene Expression Regulation, Plant ; MicroRNAs/genetics ; Salt Stress/genetics ; Soil ; Stress, Physiological/genetics
    Chemical Substances MicroRNAs ; Soil
    Language English
    Publishing date 2022-09-08
    Publishing country Switzerland
    Document type Journal Article ; Review ; Research Support, Non-U.S. Gov't
    ZDB-ID 2661518-6
    ISSN 2073-4409 ; 2073-4409
    ISSN (online) 2073-4409
    ISSN 2073-4409
    DOI 10.3390/cells11182806
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

To top