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  1. Article ; Online: Effect of water quality parameters and climatic influences on reproductive phenology of Macrognathus pancalus in wetland ecosystem: recommending a long-term management approach and conservation policy.

    Rahman, Md Ataur / Sultana, Mst Afia / Ahmed, Fee Faysal / Hossain, Md Yeamin

    Environmental monitoring and assessment

    2024  Volume 196, Issue 2, Page(s) 219

    Abstract: The study conducted an investigation into the reproductive biology of M. pancalus and assessed the influence of water quality parameters and environmental factors on the spawning pattern within the Gajner Beel ecosystem in Bangladesh. A total of 1218 ... ...

    Abstract The study conducted an investigation into the reproductive biology of M. pancalus and assessed the influence of water quality parameters and environmental factors on the spawning pattern within the Gajner Beel ecosystem in Bangladesh. A total of 1218 individuals of M. pancalus (46.39% males and 53.61% females) were collected monthly from the Gajner Beel during January to December 2018 using various fishing gears. The total length (TL) of each individual was measured using digital slide calipers, and the whole body weight (BW) was measured using an electronic balance. Fulton's conditions factor (K
    MeSH term(s) Animals ; Female ; Male ; Ecosystem ; Wetlands ; Water Quality ; Environmental Monitoring ; Reproduction ; Seasons ; Fishes
    Language English
    Publishing date 2024-01-30
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 782621-7
    ISSN 1573-2959 ; 0167-6369
    ISSN (online) 1573-2959
    ISSN 0167-6369
    DOI 10.1007/s10661-024-12364-0
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Algal deterioration of PET (polyethylene terephthalate) plastic bottle in combination with physical and chemical pretreatments

    Sabiha Sarwar / Shaibur Rahman Molla / Shilpi Das / Lamia Tammim / Fee Faysal Ahmed / Selina Akter

    Environmental and Sustainability Indicators, Vol 21, Iss , Pp 100329- (2024)

    A macrocosm study

    2024  

    Abstract: Plastic pollution has become an environmental issue worldwide because of its slow degradation and persistent nature. Many traditional methods exist and are practiced here to handle and reuse plastic waste, but those need to be more capable of tackling ... ...

    Abstract Plastic pollution has become an environmental issue worldwide because of its slow degradation and persistent nature. Many traditional methods exist and are practiced here to handle and reuse plastic waste, but those need to be more capable of tackling increasing waste volume. Biological plastic waste management could be a sustainable way to ensure environmental quality. Therefore, this study aimed to screen the bio-deterioration of PET wastes using physical and chemical pretreatments. We kept PET samples in freshwater and marine water media designed to support algal growth and incubated those under direct or indirect sunlight or in dark conditions. We observed algal growth and measured deterioration of PET samples using the tensile strength test, FTIR, and viewed surface properties using FESEM. Acid pretreatment and exposure to direct sunlight left the PET most fragile. FTIR analysis also supported the observation, and changes in functional groups are evident. Heat pretreatment usually reduces the volume and thus increases strength. Bottles incubated under direct or indirect sunlight supported the algal growth. The most prevalent algal species found in freshwater environments include Volvox, Chlorella vulgaris, Craticula cuspidate, Navicula pupula, Synedra ulna, and marine environments include Palisada perforate, Ulva flexuosa, Cladoptera herpestica, and Blindingia minima. Algal growth increases the porosity and surface cracks of PET bottles. Though FTIR analysis did not show any change in functional groups, except for acid pretreatment, upon algal growth, the transmittance increase indicated decay of PET samples.
    Keywords Plastic pollution ; PET waste ; Biodeterioration ; Photo deterioration ; Electron microscopy ; Algae ; Environmental sciences ; GE1-350
    Subject code 333
    Language English
    Publishing date 2024-02-01T00:00:00Z
    Publisher Elsevier
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  3. Article ; Online: Genome-Wide Comprehensive Identification and

    Ahmed, Fee Faysal / Dola, Farah Sumaiya / Islam, Md Shohel Ul / Zohra, Fatema Tuz / Akter, Nasrin / Rahman, Shaikh Mizanur / Rauf Sarkar, Md Abdur

    Genetics research

    2024  Volume 2024, Page(s) 2924953

    Abstract: Lectin receptor-like kinases (LecRLKs) are a significant subgroup of the receptor-like kinases (RLKs) protein family. They play crucial roles in plant growth, development, immune responses, signal transduction, and stress tolerance. However, the genome- ... ...

    Abstract Lectin receptor-like kinases (LecRLKs) are a significant subgroup of the receptor-like kinases (RLKs) protein family. They play crucial roles in plant growth, development, immune responses, signal transduction, and stress tolerance. However, the genome-wide identification and characterization of
    MeSH term(s) Hordeum/genetics ; Phylogeny ; Plant Breeding ; Arabidopsis ; Arabidopsis Proteins ; MicroRNAs ; Lectins
    Chemical Substances Arabidopsis Proteins ; MicroRNAs ; Lectins
    Language English
    Publishing date 2024-02-27
    Publishing country England
    Document type Journal Article
    ZDB-ID 2412681-0
    ISSN 1469-5073 ; 0016-6723
    ISSN (online) 1469-5073
    ISSN 0016-6723
    DOI 10.1155/2024/2924953
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Genome-wide identification of DCL, AGO and RDR gene families and their associated functional regulatory element analyses in sunflower (Helianthus annuus).

    Anamika Podder / Fee Faysal Ahmed / Md Zahid Hasan Suman / Afsana Yeasmin Mim / Khadiza Hasan

    PLoS ONE, Vol 18, Iss 6, p e

    2023  Volume 0286994

    Abstract: RNA interference (RNAi) regulates a variety of eukaryotic gene expressions that are engaged in response to stress, growth, and the conservation of genomic stability during developmental phases. It is also intimately connected to the post-transcriptional ... ...

    Abstract RNA interference (RNAi) regulates a variety of eukaryotic gene expressions that are engaged in response to stress, growth, and the conservation of genomic stability during developmental phases. It is also intimately connected to the post-transcriptional gene silencing (PTGS) process and chromatin modification levels. The entire process of RNA interference (RNAi) pathway gene families mediates RNA silencing. The main factors of RNA silencing are the Dicer-Like (DCL), Argonaute (AGO), and RNA-dependent RNA polymerase (RDR) gene families. To the best of our knowledge, genome-wide identification of RNAi gene families like DCL, AGO, and RDR in sunflower (Helianthus annuus) has not yet been studied despite being discovered in some species. So, the goal of this study is to find the RNAi gene families like DCL, AGO, and RDR in sunflower based on bioinformatics approaches. Therefore, we accomplished an inclusive in silico investigation for genome-wide identification of RNAi pathway gene families DCL, AGO, and RDR through bioinformatics approaches such as (sequence homogeneity, phylogenetic relationship, gene structure, chromosomal localization, PPIs, GO, sub-cellular localization). In this study, we have identified five DCL (HaDCLs), fifteen AGO (HaAGOs), and ten RDR (HaRDRs) in the sunflower genome database corresponding to the RNAi genes of model plant Arabidopsis thaliana based on genome-wide analysis and a phylogenetic method. The analysis of the gene structure that contains exon-intron numbers, conserved domain, and motif composition analyses for all HaDCL, HaAGO, and HaRDR gene families indicated almost homogeneity among the same gene family. The protein-protein interaction (PPI) network analysis illustrated that there exists interconnection among identified three gene families. The analysis of the Gene Ontology (GO) enrichment showed that the detected genes directly contribute to the RNA gene-silencing and were involved in crucial pathways. It was observed that the cis-acting regulatory components connected to the ...
    Keywords Medicine ; R ; Science ; Q
    Subject code 572
    Language English
    Publishing date 2023-01-01T00:00:00Z
    Publisher Public Library of Science (PLoS)
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  5. Article: Knowledge, attitude, and practices toward food safety among students in Bangladesh: A cross-sectional web-based study.

    Ali, Md Taif / Mahmud, Sultan / Mohsin, Md / Mian, Ashraf Uddin / Islam, Ariful / Ahmed, Fee Faysal

    Heliyon

    2023  Volume 9, Issue 4, Page(s) e14762

    Abstract: Background: Foodborne diseases are a preventable but under-reported public health issue. These illnesses are a public health concern and contribute significantly to healthcare costs. People must understand how their knowledge, attitudes, and practices ... ...

    Abstract Background: Foodborne diseases are a preventable but under-reported public health issue. These illnesses are a public health concern and contribute significantly to healthcare costs. People must understand how their knowledge, attitudes, and practices affect food safety and how they can reduce the risk of foodborne illness. This study aimed at investigating the current situation of knowledge, attitudes, and practices toward food safety among Bangladeshi students and identifying the determinants of having adequate knowledge, favorable attitudes, and good practices.
    Methods: The research is based on a cross-sectional anonymous online survey that took place from January 1st to February 15th, 2022. Participants in this survey had to be at least 8th-grade students enrolled in Bangladeshi institutions. Upon description of the study's aim, the questionnaire's concept, assurances regarding respondents' confidentiality, and the study's voluntary nature, informed consent was taken from each participant before starting the survey. Descriptive statistics, Chi-square test, and logistic regression were used to explore the knowledge, attitudes, and practices of students and identify factors affecting them using the statistical software STATA.
    Results: A total of 777 students participated in the study, the majority of them were male (63.96%) and aged between 18 and 25 years (60%). Almost half of the respondents were at the undergraduate level and less than half of the participants (45%) lived with their families. Among the participants, around 47% had adequate knowledge, 87% had favorable attitudes, and only 52% had good practices toward food safety. Female students, students having a food safety course/training, and students whose mothers were educated had significantly higher knowledge of food safety. Besides, students at higher education levels, students having a food safety course/training, and students with educated mothers displayed significantly higher odds of possessing favorable attitudes toward food safety. Similarly, female students, having a food safety course/training, students at higher education levels, and students with educated mothers were significantly associated with good practices toward food safety among students.
    Conclusion: The study shows that students in Bangladesh lack knowledge of food safety and have poor practices toward food safety. For the student population of Bangladesh, more systematic and targeted food safety education and training are required.
    Language English
    Publishing date 2023-03-24
    Publishing country England
    Document type Journal Article
    ZDB-ID 2835763-2
    ISSN 2405-8440
    ISSN 2405-8440
    DOI 10.1016/j.heliyon.2023.e14762
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Genome-wide identification, classification, and characterization of lectin gene superfamily in sweet orange (Citrus sinensis L.).

    Faysal Ahmed, Fee / Dola, Farah Sumaiya / Zohra, Fatema Tuz / Rahman, Shaikh Mizanur / Konak, Jesmin Naher / Sarkar, Md Abdur Rauf

    PloS one

    2023  Volume 18, Issue 11, Page(s) e0294233

    Abstract: Lectins are sugar-binding proteins found abundantly in plants. Lectin superfamily members have diverse roles, including plant growth, development, cellular processes, stress responses, and defense against microbes. However, the genome-wide identification ...

    Abstract Lectins are sugar-binding proteins found abundantly in plants. Lectin superfamily members have diverse roles, including plant growth, development, cellular processes, stress responses, and defense against microbes. However, the genome-wide identification and functional analysis of lectin genes in sweet orange (Citrus sinensis L.) remain unexplored. Therefore, we used integrated bioinformatics approaches (IBA) for in-depth genome-wide identification, characterization, and regulatory factor analysis of sweet orange lectin genes. Through genome-wide comparative analysis, we identified a total of 141 lectin genes distributed across 10 distinct gene families such as 68 CsB-Lectin, 13 CsLysin Motif (LysM), 4 CsChitin-Bind1, 1 CsLec-C, 3 CsGal-B, 1 CsCalreticulin, 3 CsJacalin, 13 CsPhloem, 11 CsGal-Lec, and 24 CsLectinlegB.This classification relied on characteristic domain and phylogenetic analysis, showing significant homology with Arabidopsis thaliana's lectin gene families. A thorough analysis unveiled common similarities within specific groups and notable variations across different protein groups. Gene Ontology (GO) enrichment analysis highlighted the predicted genes' roles in diverse cellular components, metabolic processes, and stress-related regulation. Additionally, network analysis of lectin genes with transcription factors (TFs) identified pivotal regulators like ERF, MYB, NAC, WRKY, bHLH, bZIP, and TCP. The cis-acting regulatory elements (CAREs) found in sweet orange lectin genes showed their roles in crucial pathways, including light-responsive (LR), stress-responsive (SR), hormone-responsive (HR), and more. These findings will aid in the in-depth molecular examination of these potential genes and their regulatory elements, contributing to targeted enhancements of sweet orange species in breeding programs.
    MeSH term(s) Citrus sinensis/genetics ; Citrus sinensis/metabolism ; Lectins/metabolism ; Phylogeny ; Plant Proteins/metabolism ; Plant Breeding ; Genome, Plant ; Gene Expression Regulation, Plant
    Chemical Substances Lectins ; Plant Proteins
    Language English
    Publishing date 2023-11-13
    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.0294233
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Genome-wide identification of DCL, AGO and RDR gene families and their associated functional regulatory element analyses in sunflower (Helianthus annuus).

    Podder, Anamika / Ahmed, Fee Faysal / Suman, Md Zahid Hasan / Mim, Afsana Yeasmin / Hasan, Khadiza

    PloS one

    2023  Volume 18, Issue 6, Page(s) e0286994

    Abstract: RNA interference (RNAi) regulates a variety of eukaryotic gene expressions that are engaged in response to stress, growth, and the conservation of genomic stability during developmental phases. It is also intimately connected to the post-transcriptional ... ...

    Abstract RNA interference (RNAi) regulates a variety of eukaryotic gene expressions that are engaged in response to stress, growth, and the conservation of genomic stability during developmental phases. It is also intimately connected to the post-transcriptional gene silencing (PTGS) process and chromatin modification levels. The entire process of RNA interference (RNAi) pathway gene families mediates RNA silencing. The main factors of RNA silencing are the Dicer-Like (DCL), Argonaute (AGO), and RNA-dependent RNA polymerase (RDR) gene families. To the best of our knowledge, genome-wide identification of RNAi gene families like DCL, AGO, and RDR in sunflower (Helianthus annuus) has not yet been studied despite being discovered in some species. So, the goal of this study is to find the RNAi gene families like DCL, AGO, and RDR in sunflower based on bioinformatics approaches. Therefore, we accomplished an inclusive in silico investigation for genome-wide identification of RNAi pathway gene families DCL, AGO, and RDR through bioinformatics approaches such as (sequence homogeneity, phylogenetic relationship, gene structure, chromosomal localization, PPIs, GO, sub-cellular localization). In this study, we have identified five DCL (HaDCLs), fifteen AGO (HaAGOs), and ten RDR (HaRDRs) in the sunflower genome database corresponding to the RNAi genes of model plant Arabidopsis thaliana based on genome-wide analysis and a phylogenetic method. The analysis of the gene structure that contains exon-intron numbers, conserved domain, and motif composition analyses for all HaDCL, HaAGO, and HaRDR gene families indicated almost homogeneity among the same gene family. The protein-protein interaction (PPI) network analysis illustrated that there exists interconnection among identified three gene families. The analysis of the Gene Ontology (GO) enrichment showed that the detected genes directly contribute to the RNA gene-silencing and were involved in crucial pathways. It was observed that the cis-acting regulatory components connected to the identified genes were shown to be responsive to hormone, light, stress, and other functions. That was found in HaDCL, HaAGO, and HaRDR genes associated with the development and growth of plants. Finally, we are able to provide some essential information about the components of sunflower RNA silencing through our genome-wide comparison and integrated bioinformatics analysis, which open the door for further research into the functional mechanisms of the identified genes and their regulatory elements.
    MeSH term(s) Helianthus/genetics ; Helianthus/metabolism ; Phylogeny ; Genes, Plant ; Plants/genetics ; RNA Interference ; Gene Expression Regulation, Plant ; Plant Proteins/genetics ; Plant Proteins/metabolism
    Chemical Substances Plant Proteins
    Language English
    Publishing date 2023-06-09
    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.0286994
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Knowledge, attitude, and practices toward food safety among students in Bangladesh

    Md Taif Ali / Sultan Mahmud / Md Mohsin / Ashraf Uddin Mian / Ariful Islam / Fee Faysal Ahmed

    Heliyon, Vol 9, Iss 4, Pp e14762- (2023)

    A cross-sectional web-based study

    2023  

    Abstract: Background: Foodborne diseases are a preventable but under-reported public health issue. These illnesses are a public health concern and contribute significantly to healthcare costs. People must understand how their knowledge, attitudes, and practices ... ...

    Abstract Background: Foodborne diseases are a preventable but under-reported public health issue. These illnesses are a public health concern and contribute significantly to healthcare costs. People must understand how their knowledge, attitudes, and practices affect food safety and how they can reduce the risk of foodborne illness. This study aimed at investigating the current situation of knowledge, attitudes, and practices toward food safety among Bangladeshi students and identifying the determinants of having adequate knowledge, favorable attitudes, and good practices. Methods: The research is based on a cross-sectional anonymous online survey that took place from January 1st to February 15th, 2022. Participants in this survey had to be at least 8th-grade students enrolled in Bangladeshi institutions. Upon description of the study's aim, the questionnaire's concept, assurances regarding respondents' confidentiality, and the study's voluntary nature, informed consent was taken from each participant before starting the survey. Descriptive statistics, Chi-square test, and logistic regression were used to explore the knowledge, attitudes, and practices of students and identify factors affecting them using the statistical software STATA. Results: A total of 777 students participated in the study, the majority of them were male (63.96%) and aged between 18 and 25 years (60%). Almost half of the respondents were at the undergraduate level and less than half of the participants (45%) lived with their families. Among the participants, around 47% had adequate knowledge, 87% had favorable attitudes, and only 52% had good practices toward food safety. Female students, students having a food safety course/training, and students whose mothers were educated had significantly higher knowledge of food safety. Besides, students at higher education levels, students having a food safety course/training, and students with educated mothers displayed significantly higher odds of possessing favorable attitudes toward food safety. Similarly, ...
    Keywords Food safety ; Foodborne diseases ; Knowledge ; Attitudes ; Practices ; Students ; Science (General) ; Q1-390 ; Social sciences (General) ; H1-99
    Subject code 420
    Language English
    Publishing date 2023-04-01T00:00:00Z
    Publisher Elsevier
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  9. Article ; Online: Genome-wide identification, classification, and characterization of lectin gene superfamily in sweet orange (Citrus sinensis L.).

    Fee Faysal Ahmed / Farah Sumaiya Dola / Fatema Tuz Zohra / Shaikh Mizanur Rahman / Jesmin Naher Konak / Md Abdur Rauf Sarkar

    PLoS ONE, Vol 18, Iss 11, p e

    2023  Volume 0294233

    Abstract: Lectins are sugar-binding proteins found abundantly in plants. Lectin superfamily members have diverse roles, including plant growth, development, cellular processes, stress responses, and defense against microbes. However, the genome-wide identification ...

    Abstract Lectins are sugar-binding proteins found abundantly in plants. Lectin superfamily members have diverse roles, including plant growth, development, cellular processes, stress responses, and defense against microbes. However, the genome-wide identification and functional analysis of lectin genes in sweet orange (Citrus sinensis L.) remain unexplored. Therefore, we used integrated bioinformatics approaches (IBA) for in-depth genome-wide identification, characterization, and regulatory factor analysis of sweet orange lectin genes. Through genome-wide comparative analysis, we identified a total of 141 lectin genes distributed across 10 distinct gene families such as 68 CsB-Lectin, 13 CsLysin Motif (LysM), 4 CsChitin-Bind1, 1 CsLec-C, 3 CsGal-B, 1 CsCalreticulin, 3 CsJacalin, 13 CsPhloem, 11 CsGal-Lec, and 24 CsLectinlegB.This classification relied on characteristic domain and phylogenetic analysis, showing significant homology with Arabidopsis thaliana's lectin gene families. A thorough analysis unveiled common similarities within specific groups and notable variations across different protein groups. Gene Ontology (GO) enrichment analysis highlighted the predicted genes' roles in diverse cellular components, metabolic processes, and stress-related regulation. Additionally, network analysis of lectin genes with transcription factors (TFs) identified pivotal regulators like ERF, MYB, NAC, WRKY, bHLH, bZIP, and TCP. The cis-acting regulatory elements (CAREs) found in sweet orange lectin genes showed their roles in crucial pathways, including light-responsive (LR), stress-responsive (SR), hormone-responsive (HR), and more. These findings will aid in the in-depth molecular examination of these potential genes and their regulatory elements, contributing to targeted enhancements of sweet orange species in breeding programs.
    Keywords Medicine ; R ; Science ; Q
    Subject code 572
    Language English
    Publishing date 2023-01-01T00:00:00Z
    Publisher Public Library of Science (PLoS)
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  10. Article ; Online: Investigating the Precise Identification of Citrullination Sites with High-Performance Score Metrics using a Powerful Computation Predicting Tool.

    Ahmed, Fee Faysal / Podder, Anamika / Bulbul, Md Farhad / Hossain, Md Amzad / Hasan, Mahedi / Sarkar, Md Abdur Rauf / Kim, Daijin

    Combinatorial chemistry & high throughput screening

    2023  

    Abstract: Background: To elucidate the detailed mechanisms of citrullination at the molecular level and design drugs applicable to major human diseases, predicting protein citrullination sites (PCSs) is essential. Using experimental approaches to predict PCSs is ... ...

    Abstract Background: To elucidate the detailed mechanisms of citrullination at the molecular level and design drugs applicable to major human diseases, predicting protein citrullination sites (PCSs) is essential. Using experimental approaches to predict PCSs is time-consuming and costly. However, there is a limited scope of the current PCS predictors. In particular, most predictors are commonly used for PCS prediction and have limited performance scores.
    Objective: This work aims to provide an improved sophisticated predictor of citrullination sites using a benchmark dataset in a machine learning platform.
    Methods: This study presents a reliable citrullination site predictor based on a benchmark dataset containing a 1:1 ratio of positive and negative samples. We classified citrullination sites using the Composition of the K-Spaced Amino Acid Pairs (CKSAAP) and Support Vector Machine (SVM).
    Results: We developed PCS predictors using integrated machine-learning methods that produced the highest average scores. Using 10-fold cross-validation on test datasets, the True Positive Rate (TPR) was 98.34%, the True Negative Rate (TNR) was 99.44%, the accuracy was 98.89%, the Mathew Correlation Coefficient (MCC) was 98.21%, the Area Under the ROC Curve (AUC) was 0.999, and the partial Area Under the ROC Curve (pAUC) was 0.1968.
    Conclusion: According to overall performance, our developed predictor has a significantly higher implementation in comparison with the current tools on the same benchmark dataset. Moreover, it showed better performance metrics on both test and training datasets. Our developed predictor is promising and can be implemented as a complementary technique for identifying fast and precise citrullination sites.
    Language English
    Publishing date 2023-09-12
    Publishing country United Arab Emirates
    Document type Journal Article
    ZDB-ID 2064785-2
    ISSN 1875-5402 ; 1386-2073
    ISSN (online) 1875-5402
    ISSN 1386-2073
    DOI 10.2174/1386207326666230912151932
    Database MEDical Literature Analysis and Retrieval System OnLINE

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