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  1. Article: Comprehensive Genomic Survey, Evolution, and Expression Analysis of GIF Gene Family during the Development and Metal Ion Stress Responses in Soybean.

    Alam, Intikhab / Wu, Xueting / Ge, Liangfa

    Plants (Basel, Switzerland)

    2022  Volume 11, Issue 4

    Abstract: The GIF gene family is one of the plant transcription factors specific to seed plants. The family members are expressed in all lateral organs produced by apical and floral meristems and contribute to the development of leaves, shoots, flowers, and seeds. ...

    Abstract The GIF gene family is one of the plant transcription factors specific to seed plants. The family members are expressed in all lateral organs produced by apical and floral meristems and contribute to the development of leaves, shoots, flowers, and seeds. This study identified eight GIF genes in the soybean genome and clustered them into three groups. Analyses of Ka/Ks ratios and divergence times indicated that they had undergone purifying selection during species evolution. RNA-sequence and relative expression patterns of these
    Language English
    Publishing date 2022-02-21
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2704341-1
    ISSN 2223-7747
    ISSN 2223-7747
    DOI 10.3390/plants11040570
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Comprehensive Genomic Analysis of G2-like Transcription Factor Genes and Their Role in Development and Abiotic Stresses in Arabidopsis

    Intikhab Alam / Xueting Wu / Qianxia Yu / Liangfa Ge

    Diversity, Vol 14, Iss 228, p

    2022  Volume 228

    Abstract: GOLDEN2-LIKE (GLK) transcription factors are a subfamily of GARP family transcription factors, which play an essential function in plant growth and development as well as stress response during abiotic and biotic stress conditions. This study reports GLK ...

    Abstract GOLDEN2-LIKE (GLK) transcription factors are a subfamily of GARP family transcription factors, which play an essential function in plant growth and development as well as stress response during abiotic and biotic stress conditions. This study reports GLK genes in the Arabidopsis thaliana genome in-depth and identified 55 AtGLK genes in the Arabidopsis genome. Phylogenetic analyses resolved these GLK gene clusters into seven groups. A Ka/Ks ratios analysis indicated that they had experienced purifying selection. Many essential cis elements are present in the promoter regions of AtGLK genes associated with plant hormones, light, and stress. The expression profile from RNA-Seq data revealed that 29.1% of them had relatively high expression in all tested tissues or organs, indicating their crucial housekeeping function in plant growth and development. However, many other GLK members were selectively expressed in particular tissues or organs. In silico study of the transcriptional regulation of AtGLKs indicated that it is strongly regulated by cold, drought, osmotic, salt, and metal ion stressors. Our research provides essential information for the functional studies of each GLK gene in different species in the future.
    Keywords Arabidopsis ; Golden2-like ; phylogenetic evolution ; gene expression ; abiotic stress ; Biology (General) ; QH301-705.5
    Subject code 580
    Language English
    Publishing date 2022-03-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
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  3. Article: Identification of GOLDEN2-like transcription factor genes in soybeans and their role in regulating plant development and metal ion stresses.

    Alam, Intikhab / Manghwar, Hakim / Zhang, Hanyin / Yu, Qianxia / Ge, Liangfa

    Frontiers in plant science

    2022  Volume 13, Page(s) 1052659

    Abstract: The Golden 2-Like (G2-like or GLK) transcription factors are essential for plant growth, development, and many stress responses as well as heavy metal stress. However, G2-like regulatory genes have not been studied in soybean. This study identified the ... ...

    Abstract The Golden 2-Like (G2-like or GLK) transcription factors are essential for plant growth, development, and many stress responses as well as heavy metal stress. However, G2-like regulatory genes have not been studied in soybean. This study identified the genes for 130 G2-Like candidates' in the genome of
    Language English
    Publishing date 2022-11-11
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2613694-6
    ISSN 1664-462X
    ISSN 1664-462X
    DOI 10.3389/fpls.2022.1052659
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: Comprehensive Genomic Survey, Evolution, and Expression Analysis of GIF Gene Family during the Development and Metal Ion Stress Responses in Soybean

    Alam, Intikhab / Wu, Xueting / Ge, Liangfa

    Plants. 2022 Feb. 21, v. 11, no. 4

    2022  

    Abstract: The GIF gene family is one of the plant transcription factors specific to seed plants. The family members are expressed in all lateral organs produced by apical and floral meristems and contribute to the development of leaves, shoots, flowers, and seeds. ...

    Abstract The GIF gene family is one of the plant transcription factors specific to seed plants. The family members are expressed in all lateral organs produced by apical and floral meristems and contribute to the development of leaves, shoots, flowers, and seeds. This study identified eight GIF genes in the soybean genome and clustered them into three groups. Analyses of Ka/Ks ratios and divergence times indicated that they had undergone purifying selection during species evolution. RNA-sequence and relative expression patterns of these GmGIF genes tended to be conserved, while different expression patterns were also observed between the duplicated GIF members in soybean. Numerous cis-regulatory elements related to plant hormones, light, and stresses were found in the promoter regions of these GmGIF genes. Moreover, the expression patterns of GmGIF members were confirmed in soybean roots under cadmium (Cd) and copper (Cu) stress, indicating their potential functions in the heavy metal response in soybean. Our research provides valuable information for the functional characterization of each GmGIF gene in different legumes in the future.
    Keywords cadmium ; copper ; evolution ; genes ; genomics ; heavy metals ; meristems ; soybeans ; surveys
    Language English
    Dates of publication 2022-0221
    Publishing place Multidisciplinary Digital Publishing Institute
    Document type Article
    ZDB-ID 2704341-1
    ISSN 2223-7747
    ISSN 2223-7747
    DOI 10.3390/plants11040570
    Database NAL-Catalogue (AGRICOLA)

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  5. Article: Comprehensive Genomic Analysis of G2-like Transcription Factor Genes and Their Role in Development and Abiotic Stresses in Arabidopsis

    Alam, Intikhab / Wu, Xueting / Yu, Qianxia / Ge, Liangfa

    Diversity. 2022 Mar. 20, v. 14, no. 3

    2022  

    Abstract: GOLDEN2-LIKE (GLK) transcription factors are a subfamily of GARP family transcription factors, which play an essential function in plant growth and development as well as stress response during abiotic and biotic stress conditions. This study reports GLK ...

    Abstract GOLDEN2-LIKE (GLK) transcription factors are a subfamily of GARP family transcription factors, which play an essential function in plant growth and development as well as stress response during abiotic and biotic stress conditions. This study reports GLK genes in the Arabidopsis thaliana genome in-depth and identified 55 AtGLK genes in the Arabidopsis genome. Phylogenetic analyses resolved these GLK gene clusters into seven groups. A Ka/Ks ratios analysis indicated that they had experienced purifying selection. Many essential cis elements are present in the promoter regions of AtGLK genes associated with plant hormones, light, and stress. The expression profile from RNA-Seq data revealed that 29.1% of them had relatively high expression in all tested tissues or organs, indicating their crucial housekeeping function in plant growth and development. However, many other GLK members were selectively expressed in particular tissues or organs. In silico study of the transcriptional regulation of AtGLKs indicated that it is strongly regulated by cold, drought, osmotic, salt, and metal ion stressors. Our research provides essential information for the functional studies of each GLK gene in different species in the future.
    Keywords Arabidopsis thaliana ; biotic stress ; cold ; computer simulation ; drought ; genomics ; growth and development ; phylogeny ; plant growth ; sequence analysis ; stress response ; transcription (genetics) ; transcription factors
    Language English
    Dates of publication 2022-0320
    Publishing place Multidisciplinary Digital Publishing Institute
    Document type Article
    ZDB-ID 2518137-3
    ISSN 1424-2818
    ISSN 1424-2818
    DOI 10.3390/d14030228
    Database NAL-Catalogue (AGRICOLA)

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  6. Article ; Online: Impact of plant growth-promoting rhizobacteria (PGPR) on plant nutrition and root characteristics

    Muneer Ahmed Khoso / Sindho Wagan / Intikhab Alam / Amjad Hussain / Qurban Ali / Sudipta Saha / Tika Ram Poudel / Hakim Manghwar / Fen Liu

    Plant Stress, Vol 11, Iss , Pp 100341- (2024)

    Current perspective

    2024  

    Abstract: Through a variety of mechanisms, including increasing the amount of readily available mineral nutrients, regulating phytohormone levels, and biocontrol of phytopathogens, plant growth-promoting rhizobacteria (PGPR) associated with the plant rhizosphere ... ...

    Abstract Through a variety of mechanisms, including increasing the amount of readily available mineral nutrients, regulating phytohormone levels, and biocontrol of phytopathogens, plant growth-promoting rhizobacteria (PGPR) associated with the plant rhizosphere either directly or indirectly stimulates plant growth and development. The establishment, survival, and persistence of PGPR inoculants are widely acknowledged to be contingent upon these two parameters, in addition to the intricate network of interactions within the rhizosphere. In general, the soil is a moist environment with significant amounts of carbon that have been degraded and harbors a large population of soil microbes. The rhizo-microbiome is crucial to agriculture because a wide variety of root exudates and plant cell debris attract unique and distinct patterns of microbial colonization. The rhizo-microbiome plays a crucial role in the manufacture and regulation of extracellular molecules, including hormones, secondary metabolites, antibiotics, and various signaling chemicals. Additionally, the microbial composition within the rhizo-microbiome influences soil texture enhancement. Research has shown that PGPR can be used to treat plants or inoculate plants to promote plant development. PGPR alters the physiology of the entire plant, which enhances nutrient uptake and affects the effectiveness of root activity. The specific biochemical processes of plants involved in this phenomenon are often not well understood. Nevertheless, new studies have shed light on the mechanisms via which signaling by PGPR can induce various plant responses, both at the local and systemic levels. Insufficient information is available regarding the impact of the PGPR mechanism and molecules on metabolic pathways in root characteristics. Consequently, this review will concentrate on elucidating the PGPR mechanism and identifying the essential molecules that exert influence on root-microbe interactions.
    Keywords PGPR ; Rhizosphere ; Root trait ; Phytohormones ; Plant nutrition ; Plant ecology ; QK900-989
    Subject code 580
    Language English
    Publishing date 2024-03-01T00:00:00Z
    Publisher Elsevier
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  7. Article ; Online: Developing Genetic Engineering Techniques for Control of Seed Size and Yield

    Intikhab Alam / Khadija Batool / Yuanyuan Huang / Junjie Liu / Liangfa Ge

    International Journal of Molecular Sciences, Vol 23, Iss 13256, p

    2022  Volume 13256

    Abstract: Many signaling pathways regulate seed size through the development of endosperm and maternal tissues, which ultimately results in a range of variations in seed size or weight. Seed size can be determined through the development of zygotic tissues ( ... ...

    Abstract Many signaling pathways regulate seed size through the development of endosperm and maternal tissues, which ultimately results in a range of variations in seed size or weight. Seed size can be determined through the development of zygotic tissues (endosperm and embryo) and maternal ovules. In addition, in some species such as rice, seed size is largely determined by husk growth. Transcription regulator factors are responsible for enhancing cell growth in the maternal ovule, resulting in seed growth. Phytohormones induce significant effects on entire features of growth and development of plants and also regulate seed size. Moreover, the vegetative parts are the major source of nutrients, including the majority of carbon and nitrogen-containing molecules for the reproductive part to control seed size. There is a need to increase the size of seeds without affecting the number of seeds in plants through conventional breeding programs to improve grain yield. In the past decades, many important genetic factors affecting seed size and yield have been identified and studied. These important factors constitute dynamic regulatory networks governing the seed size in response to environmental stimuli. In this review, we summarized recent advances regarding the molecular factors regulating seed size in Arabidopsis and other crops, followed by discussions on strategies to comprehend crops’ genetic and molecular aspects in balancing seed size and yield.
    Keywords seed-specific transcription factors ; signaling pathways ; seed size ; seed development ; Biology (General) ; QH301-705.5 ; Chemistry ; QD1-999
    Subject code 580
    Language English
    Publishing date 2022-10-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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    Inter-library loan at ZB MED

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  8. Article ; Online: Developing Genetic Engineering Techniques for Control of Seed Size and Yield.

    Alam, Intikhab / Batool, Khadija / Huang, Yuanyuan / Liu, Junjie / Ge, Liangfa

    International journal of molecular sciences

    2022  Volume 23, Issue 21

    Abstract: Many signaling pathways regulate seed size through the development of endosperm and maternal tissues, which ultimately results in a range of variations in seed size or weight. Seed size can be determined through the development of zygotic tissues ( ... ...

    Abstract Many signaling pathways regulate seed size through the development of endosperm and maternal tissues, which ultimately results in a range of variations in seed size or weight. Seed size can be determined through the development of zygotic tissues (endosperm and embryo) and maternal ovules. In addition, in some species such as rice, seed size is largely determined by husk growth. Transcription regulator factors are responsible for enhancing cell growth in the maternal ovule, resulting in seed growth. Phytohormones induce significant effects on entire features of growth and development of plants and also regulate seed size. Moreover, the vegetative parts are the major source of nutrients, including the majority of carbon and nitrogen-containing molecules for the reproductive part to control seed size. There is a need to increase the size of seeds without affecting the number of seeds in plants through conventional breeding programs to improve grain yield. In the past decades, many important genetic factors affecting seed size and yield have been identified and studied. These important factors constitute dynamic regulatory networks governing the seed size in response to environmental stimuli. In this review, we summarized recent advances regarding the molecular factors regulating seed size in Arabidopsis and other crops, followed by discussions on strategies to comprehend crops' genetic and molecular aspects in balancing seed size and yield.
    MeSH term(s) Gene Expression Regulation, Plant ; Plant Breeding ; Seeds/metabolism ; Arabidopsis/genetics ; Transcription Factors/metabolism ; Genetic Engineering ; Arabidopsis Proteins/genetics
    Chemical Substances Transcription Factors ; Arabidopsis Proteins
    Language English
    Publishing date 2022-10-31
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms232113256
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: Role of Lectin in the Response of

    Alam, Intikhab / Batool, Khadija / Idris, Aisha Lawan / Tan, Weilong / Guan, Xiong / Zhang, Lingling

    Frontiers in immunology

    2022  Volume 13, Page(s) 898198

    Abstract: ... Aedes ... ...

    Abstract Aedes aegypti
    MeSH term(s) Aedes/metabolism ; Animals ; Bacillus thuringiensis Toxins ; Bacterial Proteins/metabolism ; Lectins, C-Type/metabolism ; Mosquito Vectors ; Zika Virus/metabolism ; Zika Virus Infection
    Chemical Substances Bacillus thuringiensis Toxins ; Bacterial Proteins ; Lectins, C-Type
    Language English
    Publishing date 2022-05-13
    Publishing country Switzerland
    Document type Journal Article ; Review ; Research Support, Non-U.S. Gov't
    ZDB-ID 2606827-8
    ISSN 1664-3224 ; 1664-3224
    ISSN (online) 1664-3224
    ISSN 1664-3224
    DOI 10.3389/fimmu.2022.898198
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: Function of CTLGA9 Amino Acid Residue Leucine-6 in Modulating Cry Toxicity.

    Alam, Intikhab / Batool, Khadija / Idris, Aisha Lawan / Tan, Weilong / Guan, Xiong / Zhang, Lingling

    Frontiers in immunology

    2022  Volume 13, Page(s) 906259

    Abstract: ... Aedes ... ...

    Abstract Aedes aegypti
    MeSH term(s) Amino Acids/metabolism ; Animals ; Bacterial Proteins/metabolism ; Endotoxins/metabolism ; Larva/genetics ; Lectins, C-Type/metabolism ; Leucine/metabolism ; Molecular Docking Simulation ; Mosquito Vectors
    Chemical Substances Amino Acids ; Bacterial Proteins ; Endotoxins ; Lectins, C-Type ; Leucine (GMW67QNF9C)
    Language English
    Publishing date 2022-07-05
    Publishing country Switzerland
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2606827-8
    ISSN 1664-3224 ; 1664-3224
    ISSN (online) 1664-3224
    ISSN 1664-3224
    DOI 10.3389/fimmu.2022.906259
    Database MEDical Literature Analysis and Retrieval System OnLINE

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