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A Stabilized Finite Element Method for Modified Poisson-Nernst-Planck Equations to Determine Ion Flow Through a Nanopore

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Communications in Computational Physics 2014年第1期15卷 93-125页

作者： jehanzeb Hameed Chaudhry Jeffrey Comer Aleksei Aksimentiev Luke N.Olson Department for Mathematics Colorado State UniversityFort CollinsCO 80523USA. Department for Physics University of Illinois at Urbana-ChampaignUrbanaIL 61801USA. Department for Computer Science University of Illinois at Urbana-ChampaignUrbanaIL 61801USA

The conventional Poisson-Nernst-Planck equations do not account for the finite size of ions *** leads to solutions featuring unrealistically high ionic concentrations in the regions subject to external potentials,in particular,near highly charged surfaces.A modified form of the Poisson-Nernst-Planck equations accounts for steric effects and results in solutions with finite ion ***,we evaluate numerical methods for solving the modified Poisson-Nernst-Planck equations by modeling electric field-driven transport of ions through a *** describe a novel,robust finite element solver that combines the applications of the Newton’s method to the nonlinear Galerkin form of the equations,augmented with stabilization terms to appropriately handle the drift-diffusion *** make direct comparison with particle-based simulations possible,our method is specifically designed to produce solutions under periodic boundary conditions and to conserve the number of ions in the solution *** test our finite element solver on a set of challenging numerical experiments that include calculations of the ion distribution in a volume confined between two charged plates,calculations of the ionic current though a nanopore subject to an external electric field,and modeling the effect of a DNA molecule on the ion concentration and nanopore current.

关键词： Steric effects nucleic acids ionic current continuum transport theory ion channels PNP SUPG finite element method.

Multiomics approaches to explore drought tolerance in cotton

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Journal of Cotton Research 2024年第4期7卷 386-398页

作者： SHARIF Iram ALEEM Saba JUNAID Jamshaid Ali ALI Zulfiqar ALEEM Muqadas SHAHZAD Rahil FAROOQ jehanzeb khan Muhammad Imran ARSHAD Waheed ELLAHI Farrukh Cotton Research Station Ayub Agricultural Research InstituteFaisalabadPakistan Barani Agricultural Research Station Ayub Agricultural Research InstituteFatehjhanPakistan Department of Plant Breeding and Genetics University of AgricultureFaisalabad 38040Pakistan Agricultural Biotechnology Research Institute Ayub Agricultural Research InstituteFaisalabad 38040Pakistan

The situation of global warming imparts negative impacts on crop growth and *** is the most important fiber crop around the ***,frequent drought episodes pose serious threats to cotton production *** to the complex genetic structure of drought tolerance,the development of a tolerant cultivar is cumbersome via conventional *** omics techniques have appeared as successful tool for cotton improvement in drought *** omics-based biotechniques have paved the way for generation of omics data like transcriptomics,genomics,metabolomics and proteomics,which greatly expand the knowledge of cotton response to drought *** methodologies and have provided ways for the identification of quantitative trait loci(QTLs),gene regulatory networks,and other regulatory pathways against drought stress in *** resources could speed up the discovery and incorporation of drought tolerant traits in the elite *** genome wide association study(GWAS),gene-editing system CRISPER/Cas9,gene silencing through RNAi are efficient tools to explore the molecular mechanism of drought tolerance and facilitate the identification of mechanisms and candidate genes for the improvement of drought tolerance in cotton.

关键词： Drought Structural genomics Functional genomics Transcriptomics Proteomics

Stability analysis of different cotton genotypes under normal and water-deficit conditions

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Journal of Integrative Agriculture 2019年第6期18卷 1257-1265页

作者： Muhammad Riaz jehanzeb Farooq Saghir Ahmed Muhammad Amin Waqas Shafqat Chattha Maria Ayoub Riaz Ahmed Kainth Cotton Research Station Faisalabad 38850Pakistan Cotton Research Institute Multan 66000Pakistan Nuclear Institute for Food and Agriculture (NIFA) Tarnab Peshawar 446Pakistan

Cotton plant observes significant reduction in seed cotton yield when subjected to water *** find out genotypes having better drought tolerance,seven genotypes of Gossypium hirsutum *** tested under two moisture levels,i.e.,normal and water deficit stress conditions at five locations of Punjab,Pakistan(Faisalabad,Sahiwal,Vehari,Rahim Yar khan,and Bahawalpur)in 2013 and ***×environment interaction(GEI)was studied using the genotype main effects and genotype by environment interaction(GGE)biplot and additive main effect and multiplicative interaction *** genotypes G3(7001/11)and G6(FH-942)were stable under normal condition,while under drought condition,the stable genotype was G5(FH-326)when analysed using additive main effects and multiplicative interaction(AMMI)biplot *** GGE biplot analysis on the basis of best performance revealed that under normal condition the genotypes,G1(L-13/10)and G2(FH-2056/10),carrying the common position in ***,under water deficit stress condition,G5 was the best adaptive genotype at all five *** the same way,ranking of genotypes showed that the G5 was the ideal genotype under both ***,it is concluded that the genotype G5(FH-326)was found best for water deficit stress condition and can be cultivated under water scarce areas of Punjab.

关键词： upland cotton yield stability adaptability water stress Pakistan irrigation

Strategies to enhance cottonseed oil contents and reshape fatty acid profile employing different breeding and genetic engineering approaches

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Journal of Integrative Agriculture 2019年第10期18卷 2205-2218页

作者： Iram Sharif jehanzeb Farooq Shahid Munir Chohan Sadaf Saleem Riaz Ahmad Kainth Abid Mahmood Ghulam Sarwar Cotton Research Station Faisalabad 38000Pakistan Ayub Agricultural Research Institute Faisalabad 38000Pakistan

Cottonseed oil is the valuable byproduct extracted after seed cotton processing for lint. It confers a huge contribution to total vegetable oil production and ranked the 2nd to meet global edible oil requirements. Over centuries, breeders mainly focused to improve lint production and fiber quality. Now attention has been given to improve the cottonseed oil percentage, its functional and nutritional properties. However, these efforts are less than other major oilseed crops which left cottonseed oil market behind in term of consumer demand and kept cott on seed oil industry at vuln erable positi on. Con siderable progress has been made to alter the relative percentage of fatty acid composition still intensified efforts have been required to meet the global oilseed demand. The objective of this review is to explore the cotton germplasm variation for seed oil carrying potential, its utilization in suitable breeding programs, seed oil biosynthetic pathways, major genes, and QTLs linked to quantity and quality enhancement of oil and deployment of modern genomic tools, viz., gene silencing and transgenic development to ameliorate its nutritional properties.

关键词： biosynthesis edible oil gene silencing oil quality oleic acid stearic acid

Pancreatic necrosis:Complications and changing trend of treatment

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World Journal of Gastrointestinal Surgery 2019年第4期11卷 198-217页

作者： Mamoon Ur Rashid Ishtiaq Hussain Sundas jehanzeb Waqas Ullah Saeed Ali Akriti Gupta Jain Neelam Khetpal Sarfraz Ahmad Department of Internal Medicine Advent Health Graduate Medical Education Department of Gastroenterology Cleveland Clinic Internal Medicine Abington Hospital Department of Gynecologic Oncology Advent Health Cancer Institute

Incidence of acute pancreatitis seems to be increasing in the Western countries and has been associated with significantly increased morbidity. Nearly 80% of the patients with acute pancreatitis undergo resolution; some develop complications including pancreatic necrosis. Infection of pancreatic necrosis is the leading cause of death in these patients. A significant portion of these patients needs surgical interventions. Traditionally, the "gold standard" procedure has been the open surgical necrosectomy, which is now being completed by the relatively lesser invasive interventions. Minimally invasive surgical(MIS) procedures include endoscopic drainage, percutaneous image-guided catheter drainage, and retroperitoneal drainage. This review article discusses the open and MIS interventions for pancreatic necrosis with each having its own respective benefits and disadvantages are covered.

关键词： Pancreatic necrosis Necrosectomy Open surgery Minimally invasive surgery Complications Treatment Review article

Genetic variability predicting breeding potential of upland cotton(Gossypium hirsutum L.)for high temperature tolerance

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Journal of Cotton Research 2023年第2期6卷 81-97页

作者： FAROOQ Amjad SHAKEEL Amir SAEED Asif FAROOQ jehanzeb RIZWAN Muhammad CHATTHA Waqas Shafqat SARWAR Ghulam RAMZAN Yasir Cotton Research Station Ayub Agricultural Research InstituteFaisalabad 38000Pakistan Department of Plant Breeding and Genetics University of AgricultureFaisalabad 38040Pakistan

Background High temperature stress at peak flowering stage of cotton is a major hindrance for crop *** study aimed to increase genetic divergence regarding heat tolerance in newly developed cultivars and *** cotton genotypes and 40 F1(hybrids)were tested under field conditions following the treatments,viz.,high temperature stress and control at peak flowering stage in August and October under April and June sowing,*** The mean squares revealed significant differences among genotypes,treatments,genotype×treatment for relative cell injury,chlorophyll contents,canopy temperature,boll retention and seed cotton yield per *** genetic diversity among 50 genotypes was analyzed through cluster analysis and heat susceptibility index(HSI).The heat tolerant genotypes including FH-Noor,NIAB-545,FH-466,FH-Lalazar,FH-458,NIAB-878,IR-NIBGE-8,Weal-AGShahkar,and heat sensitive,i.e.,CIM-602,Silky-3,FH-326,SLH-12 and FH-442 were hybridized in line×tester fashion to produce F1 *** breeding materials’populations(40 F1)revealed higher specific combining ability variances along with dominance variances,decided the non-additive type gene action for all the *** best general combining ability effects for most of the traits were displayed by the lines,i.e.,FH-Lalazar,NIAB-878 along with testers FH-326 and *** combining ability effects and better-parent heterosis were showed by the crosses,viz.,FH-Lalazar×Silky-3,FH-Lalazar×FH-326,NIAB-878×Silky-3,and NIAB-878×FH-326 for seed cotton yield and yield contributing traits under high temperature *** Heterosis breeding should be carried out in the presence of non-additive type gene action for all the studied *** best combiner parents with better-parent heterosis may be used in crossing program to develop high yielding cultivars,and hybrids for high temperature stress tolerance.

关键词： High temperature Upland cotton Peak flowering Heterosis Gene action Combining ability

Hypoxia tolerance studies for yield,fiber and physiological traits in cotton(Gossypium hirsutum L.)

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Journal of Cotton Research 2018年第2期1卷 27-34页

作者： HUSSAIN Altaf FAROOQ jehanzeb AHMAD Saghir MAHMOOD Abid SADIQ M.Attiq ZAFAR Ullah Zafar ATHAR Habib-Ur-Rehman Cotton Research Station Cotton Research Station Ayub Agricultural Research Station Cotton Research Institute Ayub Agricultural Research Institute Institute of Pure and Applied Biology Bahauddin Zakariya University

Background： Hypoxia tolerance studies in cotton are very rare in Pakistan. Unpredicted and excessive rainfalls result in severe losses to cotton crop in many regions of the country due to lack of hypoxia tolerance in current cotton varieties. The genotypes that can tolerate flooding are not reported earlier. The studies were conducted to explore hypoxia tolerance in local germplasm which will help to develop hypoxia tolerant cotton varieties. Method： An experiment with randomized complete different cotton varieties. The genotypes were given conditions. blocks was designed to study the hypoxia tolerance in two treatments i.e., water logged and non-water logged Results： The genotypes showed significant variability for yield, fiber and physiological traits. The hypoxia studies revealed that there is significant reduction for plant height in water sensitive genotype LRA-5166. The genotype MNH-786 showed better yield and MNH-556 showed superior ginning outturn percentage under water logged conditions. Staple length, strength and micronaire values also decreased under hypoxia. Similar pattern of negative effects were observed for Chlorophyll a, b contents and chl a/b ratio. Two hypoxia tolerant cultivars CIM-573 and MNH-564 had significantly higher chlorophyll a （1.664, 1.551） than other cultivars under both normal and waterlogged conditions. There was a significant decrease in total free amino acids in all genotypes/cultivars due to waterlogging. Free amino acid contents were significantly higher in two waterlogging sensitive cultivars, CEDIX and N-KRISHMA, than other cultivars under both non-waterlogged and waterlogged conditions. Waterlogging caused a significant reduction in shoot soluble proteins and increase in shoot proline. The genotype LRA-5166 was the highest in shoot soluble proteins content and showed significant decrease in shoot proline. Conclusions： With respect to yield MNH-786 showed better results and regarding ginning outturn percentage MNH-556 exhibite

关键词： Hypoxia Proline content Cotton Chlorophyll Physiology Tolerance

S40蛋白家族在水稻叶片衰老和环境胁迫响应中的功能研究

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S40蛋白家族在水稻叶片衰老和环境胁迫响应中的功能研究