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Structural and Functional Annotation of Hypothetical Protein of Fusobacterium nucleatum Strain MJR7757B: An in Silico Approach

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Computational Molecular Bioscience 2024年第1期14卷 17-33页

作者： md. Isrfil Hossen Fouzia Mostafa Nusrat Jahan Jannatul Ferdaus Amgad Albahi Sayed Mashequl Bari College of Food Science and Technology Huazhong Agricultural University Wuhan China Department of Crop Science and Technology Rajshahi University Rajshahi Bangladesh abdul Malek Ukil Medical College Noakhali Bangladesh Department of Medicine IBN Sina Medical College Dhaka Bangladesh National Food Research Centre Khartoum Sudan Department of Aquatic Animal Health Management Sher-e-Bangla Agricultural University Dhaka Bangladesh

Fusobacterium nucleatum is an anaerobic, commensal, gram-negative oral bacterium that is carcinogenic and causes a wide range of human diseases. The present study focused on the analysis of the hypothetical protein, HMPREF3221_01179, derived from F. nucleatum strain MJR7757B, employing various computational methods to anticipate both its structure and functional characteristics. NCBI conserved domain analysis, NCBI BLASTp and MEGA Phylogenetic tree study characterize the target protein as an outer membrane efflux protein (ToIC family) which facilitate the bacterial transmembrane transport. With a molecular weight of 52120.02 Da, an isoelectric point (pI) of 8.33, and an instability index of 29.47, the protein is anticipated to exhibit good solubility in the extracellular space and crucial stability for pharmaceutical applications. The protein’s structure meets quality standards during the construction and refinement of its 3D model. The efflux inhibitor Arginine beta-naphthylamide exhibits a significant binding affinity (-7.1 kcal/mol) to the binding site of the target protein. The in-silico analysis improves the understanding of the protein and facilitates future investigations into therapeutic medication.

关键词： Fusobacterium nucleatum In Silico Bacteria Hypothetical Protein Molecular Docking

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Reservoir quality evaluation of the Narimba Formation in Bass Basin,Australia:Implications from petrophysical analysis,sedimentological features,capillary pressure and wetting fluid saturation

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Energy Geoscience 2024年第1期5卷 37-53页

作者： Wafa abdul Qader Al-Ojaili Mohamed Ragab Shalaby Wilfried Bauer Department of Applied Geosciences German University of Technology in OmanOman Geology Department Faculty of ScienceUniversity of Brunei DarussalamBrunei Darussalam Geology Department Faculty of SciencesTanta UniversityTanta31527Egypt

The evaluation of reservoir quality was accomplished on the Late Paleocene to Early Eocene Narimba Formation in Bass Basin,*** study involved combination methods such as petrophysical analysis,petrography and sedimentological studies,reservoir quality and fluid flow units from derivative parameters,and capillary pressure and wetting fluid saturation *** and diagenetic features are affecting the reservoir ***,compaction,and presence of clay minerals such as kaolinite are found to reduce the quality while dissolution and secondary porosity are noticed to improve *** is believed that the Narimba Formation is a potential reservoir with a wide range of porosity and *** ranges from 3.1%to 25.4%with a mean of 15.84%,while permeability ranges between 0.01 md.and 510 md.with a mean of 31.05 *** on the heterogenous lithology,the formation has been categorized into five groups based on permeability *** I showed an excellent to good quality reservoir with coarse *** impacts of both textural and diagenetic features improve the reservoir and producing higher reservoir quality index(RQI)and flow zone indicators(FZI)as well as mostly mega *** non-wetting fluid migration has the higher possibility to flow in the formation while displacement pressure recorded as *** II showed a fair quality reservoir with lower petrophysical properties in macro *** irreducible water saturation is increasing while the textural and digenetic properties are still enhancing the reservoir *** III reflects lower quality reservoir with mostly macro pores and higher displacement *** may indicate smaller grain size and increasing amount of cement and clay *** IV,and V are interpreted as a poor-quality reservoir that has lower RQI and *** textural and digenetic features are negatively affecting the reservoir and are leading to smaller pore size and pore throat radii(r35)

关键词： Narimba formation Petrophysics Reservoir quality Capillary pressure Wetting fluid saturation

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Zoonotic human liver flukes,a type 1 biocarcinogen,in freshwater fishes:genetic analysis and confirmation of molluscan vectors and reservoir hosts in Bangladesh

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Infectious Diseases of Poverty 2024年第3期13卷 73-88页

作者： Sharmin Shahid Labony md.abdul Alim Muhammad Mehedi Hasan md.Shahadat Hossain Sharmin Akter Joydeep Paul Thahsin Farjana md.Haydar Ali Mohammad Zahangir Alam Takeshi Hatta Hayato Kawada Keiko Mizutani Naotoshi Tsuji null Anisuzzaman Department of Parasitology Faculty of Veterinary ScienceBangladesh Agricultural UniversityMymensingh 2202Bangladesh Department of Fisheries Technology Faculty of FisheriesBangladesh Agricultural UniversityMymensingh 2202Bangladesh Department of Biotechnology School of Life Sciences&BiotechnologyAdamas UniversityBarasat-Barrackpore RdJagannathpurKolkataWest Bengal 700126India Department of Pathology and Parasitology Hajee Mohammad Danesh Science and Technology UniversityDinajpur 5200Bangladesh Department of Parasitology and Tropical Medicine Kitasato University School of Medicine1-15-1 KitasatoMinamiSagamiharaKanagawa 252-0374Japan Department of Molecular and Cellular Parasitology Kitasato University Graduate School of Medical Sciences1-15-1 KitasatoMinamiSagamiharaKanagawa 252-0373Japan

Background Opisthorchiid flukes,particularly Opisthorchis viverrini,Opisthorchis felineus,Clonorchis sinensis,and Metorchis *** the most common fish-borne zoonotic human liver flukes(hLFs).Liver fluke infections are more prevalent in resource-deprived and underprivileged *** herein estimated the prevalence of the metacercariae(MC)of major hLFs in common large freshwater fishes(lFWF)marketed for human consumption from some selected areas of Bangladesh along with detection of their molluscan vectors and *** The current status of fish-borne zoonotic hLF infections in lFWF was investigated along with their molluscan vectors and mammalian reservoir hosts in Mymensingh and Kishoreganj in Bangladesh from July 2018-June 2022 using conventional and multiple molecular techniques,such as PCR,PCR-restriction fragment length polymorphism(RFLP),sequencing,and bioinformatic *** infection rate of fishes was analyzed using the Z-test and the loads of MC were compared using the chi-squared(χ^(2))*** The MC of ***,Opisthorchis spp.,and Metorchis *** detected in 11 species of common and popular *** lFWF,the estimated prevalence was 18.7%and the mean load was 137.4±149.8 MC per 100 g of *** prevalence was the highest(P0.05)distributed between the head and body of *** infection rate was slightly higher in cultured(19.6%)*** MC of ***,***,***,and Metorchis orientalis in fishes were confirmed using PCR,PCR-RFLP and *** cercariae of opisthorchiid(Pleurolophocercus cercariae)flukes were only recovered from Bithynia spp.(3.9%,42 out of 1089).The ova of hLFs from dogs(4.3%,5 out of 116)and cats(6.0%,6 out of 100),and adult flukes(***)from ducks(41.1%113 out of 275)were *** The MC of

关键词： Human liver fluke Freshwater fish Molluscan vector Reservoir host Bangladesh

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Single polarization photonic crystal fiber filter based on surface plasmon resonance

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Frontiers of Optoelectronics 2019年第2期12卷 157-164页

作者： md. Nazmul HOSSEN md. FERDOUS Kawsar AHMED md. abdul KHALEK Sujan CHAKMA Bikash Kumar PAUL Department of Information and Communication Technology(ICT) Mawlana Bhashani Science and Technology University(MBSTU)SantoshTangail 1902Bangladesh Group of Biophotomatix SantoshTangail 1902Bagladesh Department of Software Enineering(SWE) Daffodil International UniversityShukrabadDhaka 1207Bangladesh

In this paper,we propose a photonic crystal fiber(PCF)polarization filter based on surface plasmon resonance(SPR)*** nanowire is used as the active plasmonic *** into silica core becomes coupled to gold nanowire stimulating SPR. It soplits light into two orthogonal(x-polarization and y-polarization)polarization in the second order of surface plasmon *** investigations of the proposed PCF filter is finite element method(FEM).By position,the performance of the propsed PCF filter is inspected *** of any polarization can be obtained by properly placing the metal *** maximum cnfinement loss of x-polarization is 692.25dB/cm and y-polarization is 1.13dB/cm offers at resonance position 1.42μ*** a confinement loss difference between two orthogonal polarizations makes PCF a talented candidate to filter ***,the recommended PCF structure is useful for polarization device.

关键词： photonic crystal fiber (PCF) surface plasmon resonance (SPR) perfectly match layer polarization filter

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Growth performance of Avicennia officinalis L. and the effect of spacing on growth and yield of trees planted in the Western coastal belt of Bangladesh

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Journal of Forestry Research 2014年第4期25卷 835-838页

作者： md. abdul Quddus Miah Sk. Ahiul Islam md. Ahsan Habib md. Golam Moula Plantation Trial Unit Division Bangladesh Forest Research Institute Rupatoli Barisal-8206 Bangladesh

A trial ofAvicennia officinalis L. with five different spacings was conducted in the newly accreted lands along the western coastline （Patuakhali district） of Bangladesh since 1993 to assess growth perform- ance and the effect of spacing on tree growth. Data on tree density, height, diameter, bole height, crown diameter were recorded and ana- lyzed when the stand was 19 years old. Mean height ranged from 12.89-13.52 m and diameter at breast height （dbh） from 26.57-32.16 cm in plots of different spacings. The mean annual height increment ranged from 0,67-0.71 m, mean annual diameter increment from 1.40-1.69 cm and wood volume from 6.02-10.04 ***＇*** in different treatments. Significantly greater diameter （32.16 cm） and wood volume （10.04 ***.a-1） were obtained with wider （2.13 m × 2.13 m） spacing than with closer spacings. But tree growth was unaffected by other spacings. Growth data were also recorded from other .4. officinalis plantations raised by Forest Department （FD） on different islands in Patuakhali and Bhola districts of Bangladesh. At these sites, mean annual height incre- ment ranged from 0.33-0.62 m, mean annual diameter increment from 0.72-1,37 cm and wood volume from 1.55-5.73 m3·ha-1·a·-1. The growth performance of A. offindicated that the newly aecreted lands along the western shoreline may be suitable for raising Avicennia planta- tions for the enrichment of coastal vegetation.

关键词： growth Avicennia officinalis plantation spacing coastal belt

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Effects of variation in seed sources and pre-sowing treatments on seed germination of Tamarindus indica: a multi-purpose tree species in Bangladesh

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Forestry Studies in China 2013年第2期15卷 121-129页

作者： md. Salim AZAD Nurun NAHAR md. abdul MATIN Forestry and Wood Technology Discipline Khulna UniversityKhulna 9208 Bangladesh Faculty of Forest Sciences and Forest Ecology Georg-August UniversityGoettingen 37077 Germany

We investigated the morphology and germination of Tamarindus indica seeds in order to discover the ef- fects of variation in seed sources and pre-sowing treatments on germination. The experiment was carried out in the nursery of the Forestry and Wood Technology Discipline, Khulna University, Bangladesh. Seeds were collected from different but healthy trees from various locations in Bangladesh and subjected to four pre-sowing treatments, i.e., control, immersion in cold water （4℃ for 24 h）, immersion in hot water （80℃ for 10 min） and scarification with sand paper. Seed germination was carried out in poly-bags with a mixture of topsoil and cow dung in the ratio of 3：1. The average length of the fresh seeds was 1.35 ＋ 0.26 cm, their width 1.07 ＋ 0.20 cm and thickness 0.69 ＋ 0.11 cm. The results revealed that pre-sowing treatments affected the germination process of seeds, which significantly increased the germination percentage with the cold water （81.67%） and scarification with sand paper （82.33%） treatments, compared with those in the control （58.33%） and hot water treatment （59.00%）. In all treatments germination started on average within 5 to 7 days after the start of the treatments and were completed from 13 to 19 days later. The greatest success in germination （82.33%） was found in scarification with sand paper, followed with 81.67% in the cold water treatment. The results of analyses of variance （ANOVA） showed significant differences （p 〈 0.05） in germination closing dates, seed germination periods and germination percentages among the treatments but no significant difference among seed sources. However, the effect of the interaction between seed source variation and pre-treatment differed significantly in seed germination closing dates and germination percentages. We recommend cold water treatment （submersion of seed at a temperature of 4℃ for a 24-h period） for seed germination of T. indica in rural Bangladesh.

关键词： germination techniques provenance variation scarification seed dormancy water treatment

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Long-term outcomes of titanium-nitride-oxide coated stents and drug-eluting stents in acute coronary syndrome:A systematic review and meta-analysis

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World Journal of Cardiology 2024年第5期16卷 293-305页

作者： Muhammad Ahmed Ali Fahim Afia Salman Hira Anas Khan Syed Muhammad Hasan Muskan FatimaBhojani Sarah Aslam Amna Zia Ul Haq Vishal Reddy Bejugam Beena Muntaha Nasir Wajiha Gul abdul Moeed Abdelrahman S Abdalla Muhammad Majid Muhammad Sohaib Asghar md.Al Hasibuzzaman Department of Internal Medicine Dow University of Health SciencesKarachi 74200Pakistan Department of Internal Medicine North Central Bronx HospitalBronxNY 10467United States Department of Urology Center for Academic MedicineStanford University School of MedicinePalo AltoCA 33872United States Department of Cardiovascular Imaging Cleveland ClinicClevelandOH 44195United States Division of Nephrology and Hypertension Mayo Clinic RochesterRochesterMN 55905United States Institute of Nutrition and Food Science University of DhakaDhaka 1000Bangladesh

BACKGROUND In severe cases of coronary artery disease,percutaneous coronary intervention provide promising *** stent used could be a drug-eluting stent(DES)or a titanium-nitride-oxide coated stent(TiNOS).AIM To compare the 5-year effectiveness and safety of the two stent *** The following systematic review and meta-analysis was conducted in accordance with the preferred reporting items for systematic reviews and meta-analysis guidelines,and PubMed/MEDLINE,Scopus,and Cochrane Central were searched from inception till August *** outcomes were major adverse cardiac events(MACE),cardiac death,myocardial infarction(MI),cardiac death or MI,and ischemia-driven total lesion revascularization(ID-TLR).RESULTS Four randomized controlled trials(RCT),which analyzed a sum total of 3045 patients with acute coronary syndrome(ACS)after a median follow-up time of 5 years were *** statistically insignificant,an increase in the ID-TLR was observed in patients receiving TiNOSs vs *** addition,MI,cardiac death and MI,and definite stent thrombosis(DST)were significantly decreased in the TiNOS *** analysis revealed no significant results with meta-regression presenting non-ST elevated MI(NSTEMI)as a statistically significant covariate in the outcome of *** TiNOS was found to be superior to DES in terms of MI,cardiac death or MI,and DST outcomes,however,the effect of the two stent types on ID-TLR and MACE was not significant.A greater number of studies are required to establish an accurate comparison of patient outcomes in TiNOS and DES.

关键词： Stents Drug-eluting Major adverse cardiac events All-cause death Meta-analysis

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Autophagy as a targeted therapeutic approach for skin cancer:Evaluating natural and synthetic molecular interventions

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Cancer Pathogenesis and Therapy 2024年第4期2卷 231-245页

作者： md.Liakot Ali Amd.d Hossain Roky S.M.Asadul Karim Azad abdul Halim Shaikat Jannatul Naima Meem Emtiajul Hoque Abu Mohammed Fuad Ahasan Mohammed Murshedul Islam md.Saifur Rahaman Arif md.Saqline Mostaq md.Zihad Mahmud Mohammad Nurul Amin md.shiq Mahmud Department of Pharmacy University of ChittagongChattogram 4331Bangladesh Pratyasha Health Biomedical Research Center Dhaka 1230Bangladesh Department of Pharmacy International Islamic University ChittagongChattogram 4318Bangladesh Department of Pharmacy Daffodil International UniversityDhaka 1216Bangladesh Department of Pharmacy BGC Trust University BangladeshChattogram 4381Bangladesh School of Basic Pharmaceutical and Toxicological Sciences College of PharmacyUniversity of Louisiana at MonroeMonroeLA 71209-0497USA Pioneer Dental College and Hospital Dhaka 1229Bangladesh

Skin cancer,a prevalent malignancy worldwide,poses significant health concerns owing to its increasing ***,a natural cellular process,is a pivotal event in skin cancer and has advantageous and detrimental *** duality has prompted extensive investigations into medical interventions targeting autophagy modulation for their substantial therapeutic *** systematic review aimed to investigate the relationship between skin cancer and autophagy and the contribution and mechanism of autophagy modulators in skin *** outlined the effectiveness and safety of targeting autophagy as a promising therapeutic strategy for the treatment of skin *** comprehensive review identified a diverse array of autophagy modulators with promising potential for the treatment of skin *** of these compounds demonstrates efficacy through distinct physiological mechanisms that have been elucidated in ***,findings from a literature search indicated that none of the natural,synthetic,or semisynthetic compounds exhibited notable adverse effects in either human or animal ***,this review offers novel mechanistic and therapeutic perspectives on the targeted modulation of autophagy in skin cancer.

关键词： Autophagy Skin cancer Autophagy inducers Autophagy inhibitors Nature-derived compounds Synthetic compounds

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Impact of non-alcoholic fatty liver disease on coronavirus disease 2019: A systematic review

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World Journal of Hepatology 2024年第8期16卷 1185-1198页

作者： abdul Moeed Muhammad Omar Larik Muhammad Ahmed Ali Fahim Hafsah Alim Ur Rahman Lubna Najmi Mah I Kan Changez Muhammad Moiz Javed md.Al Hasibuzzaman Department of Internal Medicine Dow University of Health SciencesKarachi 74200SindhPakistan Department of Internal Medicine Dow International Medical CollegeKarachi 74200SindhPakistan Department of Internal Medicine Ziauddin UniversityKarachi 75000SindhPakistan Department of Research Yale UniversityNew Haven 06520CTUnited States Department of Internal Medicine King Edward Medical UniversityLahore 54000PunjabPakistan Institute of Nutrition and Food Science University of DhakaDhaka 1000Bangladesh Department of Medicine The Affiliated Hospital of Medical School of Ningbo UniversityNingbo 315211Zhejiang ProvinceChina

BACKGROUND Many studies have revealed a link between non-alcoholic fatty liver disease(NA-FLD)and coronavirus disease 2019(COVID-19),making understanding the relationship between these two conditions an absolute *** To provide a qualitative synthesis on the currently present data evaluating COVID-19 and *** This systematic review was conducted in accordance with the guidelines pro-vided by preferred reporting items for systematic reviews and meta-analyses and the questionnaire utilized the population,intervention,comparison,and outcome *** search strategy was run on three separate databases,PubMed/MEDLINE,Scopus,and Cochrane Central,which were systematically searched from inception until March 2024 to select all relevant *** addition,***,***,and Google Scholar were searched to identify grey *** After retrieval of 11 studies,a total of 39282 patients data were *** was found in 11.5%and 9.4%of people in NAFLD and non-NAFLD *** all,23.2%of NAFLD patients and 22%of non-NAFLD admissions diagnosed with COVID-19 were admitted to the intensive care unit,with days of stay *** support ranged from 5%to 40.5%in the NAFLD cohort and from 3.1%to 20%in the non-NAFLD *** incidence of acute liver injury showed *** improvement on days 7 and 14 between the two classifications was *** stay ranged from 9.6 days to 18.8 days and 7.3 days to 16.4 days in the aforementioned cohorts respectively,with 73.3%and 76.3%of patients being *** rates *** Clinical outcomes except mortality consistently showed a worsening trend in patients with NAFLD and concomitant *** research in conducting prospective longitudinal studies is essential for a more powerful conclusion.

关键词： Non-alcoholic fatty liver disease Coronavirus disease 2019 Mechanical ventilation Intensive care unit Acute liver injury

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Effect of different additives on the phase separation behavior and thermodynamics of p-tert-alkylphenoxy poly (oxyethylene) ether in absence and presence of drug

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Chinese Journal of Chemical Engineering 2018年第5期26卷 1110-1118页

作者： Marzia Rahman md. Anamul Hoque Mohammed abdullah Khan Malik abdul Rub abdullah M. Asiri Department of Chemistry Jahangirnagar University Savar Dhaka 1342 Bangladesh Chemistry Department Faculty of Science King Abdulaziz University Jeddah 21589 Saudi Arabia Center of Excellence for Advanced Materials Research King Abdulaziz UniversityJeddah 21589 Saudi Arabia

Cloud point （CP） determinations of 4-（1,1,3,3-tetramethylbutyl）phenyl-polyethylene glycol （TX-100 （nonionic surfactant）） was carried out in aqueous as well as in the attendance of drug （ceftriaxone sodium trihydrate （CFT））/（CFT ＋ different inorganic salts） and discussed thoroughly. Nonionic surfactants are employed exten- sively in different formulations. In aqueous solution, the values of CP of TX-100 are obtained to increase by means of enhancing of their concentration in the solution. The CP values of TX-100 solutions were found to de- crease in the presence of drug and their values decrease more with rising concentrations of the drug. The values of CP of CFT and TX-100 mixtures were found to further decrease in the attendance of inorganic salts in compar- ison to their absence. The effect of different sodium salts in decreasing CP values of TX-100 was achieved in the following order： NaCO3 〉 Na2SO4 〉 NaCl. However, in the case of potassium and ammonium salts, the decreasing order obtained is K2SO4 〉 KCO3 〉 KCI and （NH4）2SO4 〉 Na2CO3 〉 NH4Cl respectively. Various thermodynamic pa- rameters for example standard free energy （△G c）, standard enthalpy （△H c） as well as standard entropy （△S c） changes of phase separation were also evaluated and discussed in detail on the basis of their behavior.

关键词： Cloud point TX-100 Ceftriaxone sodium trihydrate Inorganic salts Thermodynamic parameters

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