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Article ; Online: Comparison between the recovery rate of three concentration protocols of water samples intended for analysis by Molecular Biology

Hamoucha El Boujnouni / Kaoutar Nait Balla / Bouchra Belkadi / Mohamed Rahouti

Saudi Journal of Biological Sciences, Vol 29, Iss 3, Pp 1592-

Membrane filtration, filtration on gauze pad and centrifugation

2022 Volume 1597

Abstract: The presence of microorganisms (bacteria, protozoa, viruses, etc.) in water is a crucial indicator of its quality and safety. The detection of these microorganisms by conventional and classical techniques is widely used in water quality control ... ...

Abstract	The presence of microorganisms (bacteria, protozoa, viruses, etc.) in water is a crucial indicator of its quality and safety. The detection of these microorganisms by conventional and classical techniques is widely used in water quality control laboratories; nevertheless these methods have limitations in terms of rapidity and precision of results. The use of Molecular Biology has been a great evolution in the techniques of water analysis. However, the choice of the concentration protocol allowing for the best rate of microorganism recovery in a suspension remains a real challenge. The objective of this experimental study is to compare the recovery rate of three different protocols of water concentration (membrane filtration, filtration on gauze pad and centrifugation) for samples intended for analysis by polymerase chain reaction PCR. Which can then serve as a reference protocol for water quality control laboratories. The experimental results have shown that the membrane filtration protocol yields the best recovery rate and concentration of microorganisms followed by filtration on gauze pad, while the centrifugation protocol (8000g, 10 min, 22 °C) gives the lowest rate of recovery out of the three protocols. The experimental results obtained through this study allows us to contribute to the optimization and standardization of water samples concentration techniques intended for analysis by Molecular Biology.
Keywords	Water ; Concentration ; Microorganisms ; Filtration ; Centrifugation ; PCR ; Biology (General) ; QH301-705.5
Subject code	660
Language	English
Publishing date	2022-03-01T00:00:00Z
Publisher	Elsevier
Document type	Article ; Online
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Article ; Online: Contribution of Wild Relatives to Durum Wheat ( Triticum turgidum subsp. durum ) Yield Stability across Contrasted Environments

Hafid Aberkane / Ahmed Amri / Bouchra Belkadi / Abdelkarim Filali-Maltouf / Jan Valkoun / Zakaria Kehel

Agronomy, Vol 11, Iss 1992, p

2021 Volume 1992

Abstract: Durum wheat ( Triticum turgidum subsp. durum ) is mostly grown in Mediterranean type environments, characterized by unpredictable rainfall amounts and distribution, heat stress, and prevalence of major diseases and pests, all to be exacerbated with ... ...

Abstract	Durum wheat ( Triticum turgidum subsp. durum ) is mostly grown in Mediterranean type environments, characterized by unpredictable rainfall amounts and distribution, heat stress, and prevalence of major diseases and pests, all to be exacerbated with climate change. Pre-breeding efforts transgressing adaptive genes from wild relatives need to be strengthened to overcome these abiotic and biotic challenges. In this study, we evaluated the yield stability of 67 lines issued from interspecific crosses of Cham5 and Haurani with Triticum dicoccoides , T. agilopoides , T. urartu , and Aegilops speltoides , grown under 15 contrasting rainfed and irrigated environments in Morocco, and heat-prone conditions in Sudan. Yield stability was assessed using parametric (univariate (e.g., Bi, S 2 di, Pi etc) and multivariate (ASV, SIPC)) and non-parametric (Si1, Si2, Si3 and Si6) approaches. The combined analysis of variance showed the highly significant effects of genotypes, environments, and genotype-by-environment interaction (GEI). The environments varied in yield (1370–6468 kg/ha), heritability (0.08–0.9), and in their contribution to the GEI. Several lines derived from the four wild parents combined productivity and stability, making them suitable for unpredictable climatic conditions. A significant advantage in yield and stability was observed in Haurani derivatives compared to their recurrent parent. Furthermore, no yield penalty was observed in many of Cham5 derivatives; they had improved yield under unfavorable environments while maintaining the high yield potential from the recurrent parent (e.g., 142,026 and 142,074). It was found that a limited number of backcrosses can produce high yielding/stable germplasm while increasing diversity in a breeding pipeline. Comparing different stability approaches showed that some of them can be used interchangeably; others can be complementary to combine broad adaption with higher yield.
Keywords	durum wheat ; crop wild relatives ; yield stability ; genotype by environment interaction ; Agriculture ; S
Subject code	500
Language	English
Publishing date	2021-10-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
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Article ; Online: Plant NHX Antiporters: From Function to Biotechnological Application, with Case Study.

Karim, Rabeh / Bouchra, Belkadi / Fatima, Gaboun / Abdelkarim, Filali-Maltouf / Laila, Sbabou

Current protein & peptide science

2021 Volume 22, Issue 1, Page(s) 60–73

Abstract: Salt stress is one of the major abiotic stresses that negatively affect crops worldwide. Plants have evolved a series of mechanisms to cope with the limitations imposed by salinity. Molecular mechanisms, including the upregulation of cation transporters ... ...

Abstract	Salt stress is one of the major abiotic stresses that negatively affect crops worldwide. Plants have evolved a series of mechanisms to cope with the limitations imposed by salinity. Molecular mechanisms, including the upregulation of cation transporters such as the Na+/H+ antiporters, are one of the processes adopted by plants to survive in saline environments. NHX antiporters are involved in salt tolerance, development, cell expansion, growth performance and disease resistance of plants. They are integral membrane proteins belonging to the widely distributed CPA1 sub-group of monovalent cation/H+ antiporters and provide an important strategy for ionic homeostasis in plants under saline conditions. These antiporters are known to regulate the exchange of sodium and hydrogen ions across the membrane and are ubiquitous to all eukaryotic organisms. With the genomic approach, previous studies reported that a large number of proteins encoding Na+/H+ antiporter genes have been identified in many plant species and successfully introduced into desired species to create transgenic crops with enhanced tolerance to multiple stresses. In this review, we focus on plant antiporters and all the aspects from their structure, classification, function to their in silico analysis. On the other hand, we performed a genome-wide search to identify the predicted NHX genes in Argania spinosa L. We highlighted for the first time the presence of four putative NHX (AsNHX1-4) from the Argan tree genome, whose phylogenetic analysis revealed their classification in one distinct vacuolar cluster. The essential information of the four putative NHXs, such as gene structure, subcellular localization and transmembrane domains was analyzed.
MeSH term(s)	Amino Acid Sequence ; Arabidopsis/classification ; Arabidopsis/genetics ; Arabidopsis/metabolism ; Gene Expression Regulation, Plant ; Genome, Plant ; Homeostasis/genetics ; Phylogeny ; Plant Proteins/chemistry ; Plant Proteins/genetics ; Plant Proteins/metabolism ; Plants, Genetically Modified ; Protein Domains ; Protein Isoforms/chemistry ; Protein Isoforms/genetics ; Protein Isoforms/metabolism ; Salinity ; Salt Tolerance/genetics ; Sapotaceae/classification ; Sapotaceae/genetics ; Sapotaceae/metabolism ; Sequence Homology, Amino Acid ; Sodium-Hydrogen Exchangers/chemistry ; Sodium-Hydrogen Exchangers/genetics ; Sodium-Hydrogen Exchangers/metabolism ; Stress, Physiological/genetics
Chemical Substances	Plant Proteins ; Protein Isoforms ; Sodium-Hydrogen Exchangers
Language	English
Publishing date	2021-03-11
Publishing country	United Arab Emirates
Document type	Journal Article ; Review
ZDB-ID	2045662-1
ISSN	1875-5550 ; 1389-2037
ISSN (online)	1875-5550
ISSN	1389-2037
DOI	10.2174/1389203721666201103085151
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Article ; Online: Prevalence of Hepatitis B virus infection markers among patients of Ibn Sina University Hospital Center (Rabat, Morocco)

Mourad Feindiri / Hakima Kabbaj / Mohammed El Mzibri / Bouchra Belkadi / Najat Bouihat / Abdelkrim Filali-Maltouf / Myriam Seffar

Intervirology (2021)

2021

Keywords	Specialties of internal medicine ; RC581-951
Language	English
Publishing date	2021-09-01T00:00:00Z
Publisher	Karger Publishers
Document type	Article ; Online
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Article ; Online: Assessment of Drought and Heat Tolerance of Durum Wheat Lines Derived from Interspecific Crosses Using Physiological Parameters and Stress Indices

Hafid Aberkane / Bouchra Belkadi / Zakaria Kehel / Abdelkarim Filali-Maltouf / Izzat S. A. Tahir / Sara Meheesi / Ahmed Amri

Agronomy, Vol 11, Iss 695, p

2021 Volume 695

Abstract: Drought and high temperature are the major abiotic stresses for wheat production. The present study investigated the effect of drought and chronic heat stress on physiological parameters of durum wheat lines derived from interspecific crosses and their ... ...

Abstract	Drought and high temperature are the major abiotic stresses for wheat production. The present study investigated the effect of drought and chronic heat stress on physiological parameters of durum wheat lines derived from interspecific crosses and their association with yield. Seventy-seven durum wheat lines were evaluated during two seasons (2016–2017 and 2017–2018) for drought tolerance at Tessaout (Morocco) using irrigated and rainfed treatments and for heat tolerance at Wad Medani (Sudan). Five drought screening indices (alone or combined) and physiological parameters were used to assess drought and heat tolerance. Among the physiological parameters used, canopy temperature (CT) had moderate heritability and was significantly affected by both severe and moderate drought stresses. CT at early heading showed a stronger correlation with grain yield (GY) and total biomass (BY) under heat stress. The use of maximum quantum yield of PSII (Fv/Fm) for drought/heat screening was limited by the low genetic variation despite its significant correlation with yield under drought (r 2 = 0.22) and heat (r 2 = 0.4). The normalized difference vegetation index (NDVI) at vegetative stage was highly correlated with GY and BY and it showed high genotypic variation that can allow for efficient selection. The grain filling rate (GFR) was found to be highly correlated with GY and BY under heat stress. The modified stress tolerance index (MsSTI) had the highest association with GY under drought (R 2 = 0.82) while the mean productivity (MP) was adapted to both optimal conditions (R 2 = 0.77) and drought stress (R 2 = 0.73). The computation of a mean score index (MSI) improved the selection efficiency under drought (R 2 = 0.92). The results showed good potential for lines derived from wide crosses to increase variability for heat and drought adaptive physiological traits.
Keywords	durum wheat ; drought ; heat ; tolerance ; canopy temperature ; chlorophyll fluorescence ; Agriculture ; S
Subject code	333
Language	English
Publishing date	2021-04-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Crystal structure, Hirshfeld surface analysis and interaction energy, DFT and antibacterial activity studies of ethyl 2-[(2Z)-2-(2-chlorobenzylidene)-3-oxo-3,4-dihydro-2H-1,4-benzothiazin-4-yl]acetate

Ghizlane Sebbar / Ellouz Mohamed / Tuncer Hökelek / Joel T. Mague / Nada Kheira Sebbar / El Mokhtar Essassi / Bouchra Belkadi

Acta Crystallographica Section E: Crystallographic Communications, Vol 76, Iss 5, Pp 629-

2020 Volume 636

Abstract: The title compound, C19H16ClNO3S, consists of chlorophenyl methylidene and dihydrobenzothiazine units linked to an acetate moiety, where the thiazine ring adopts a screw-boat conformation. In the crystal, two sets of weak C—HPh.ODbt (Ph = phenyl and Dbt = ...

Abstract	The title compound, C19H16ClNO3S, consists of chlorophenyl methylidene and dihydrobenzothiazine units linked to an acetate moiety, where the thiazine ring adopts a screw-boat conformation. In the crystal, two sets of weak C—HPh.ODbt (Ph = phenyl and Dbt = dihydrobenzothiazine) hydrogen bonds form layers of molecules parallel to the bc plane. The layers stack along the a-axis direction with intercalation of the ester chains. The crystal studied was a two component twin with a refined BASF of 0.34961 (5). The Hirshfeld surface analysis of the crystal structure indicates that the most important contributions to the crystal packing are from H.H (37.5%), H.C/C.H (24.6%) and H.O/O.H (16.7%) interactions. Hydrogen-bonding and van der Waals interactions are the dominant interactions in the crystal packing. Computational chemistry indicates that in the crystal, C—HPh.ODbt hydrogen bond energies are 38.3 and 30.3 kJ mol−1. Density functional theory (DFT) optimized structures at the B3LYP/ 6–311 G(d,p) level are compared with the experimentally determined molecular structure in the solid state. The HOMO–LUMO behaviour was elucidated to determine the energy gap. Moreover, the antibacterial activity of the title compound has been evaluated against gram-positive and gram-negative bacteria.
Keywords	crystal structure ; hydrogen bond ; dihydrobenzothiazine ; antibacterial activity ; hirshfeld surface ; Chemistry ; QD1-999
Subject code	540
Language	English
Publishing date	2020-05-01T00:00:00Z
Publisher	International Union of Crystallography
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Crystal structure, Hirshfeld surface analysis and interaction energy, DFT and antibacterial activity studies of (Z)-4-hexyl-2-(4-methylbenzylidene)-2H-benzo[b][1,4]thiazin-3(4H)-one

Ghizlane Sebbar / Brahim Hni / Tuncer Hökelek / Joel T. Mague / Nada Kheira Sebbar / Bouchra Belkadi / El Mokhtar Essassi

Acta Crystallographica Section E: Crystallographic Communications, Vol 76, Iss 6, Pp 889-

2020 Volume 895

Abstract: The title compound, C22H25NOS, consists of methylbenzylidene and benzothiazine units linked to a hexyl moiety, where the thiazine ring adopts a screw-boat conformation. In the crystal, inversion dimers are formed by weak C—HMthn.OBnzthz hydrogen bonds ... ...

Abstract	The title compound, C22H25NOS, consists of methylbenzylidene and benzothiazine units linked to a hexyl moiety, where the thiazine ring adopts a screw-boat conformation. In the crystal, inversion dimers are formed by weak C—HMthn.OBnzthz hydrogen bonds and are linked into chains extending along the a-axis direction by weak C—HBnz.OBnzthz (Bnz = benzene, Bnzthz = benzothiazine and Mthn = methine) hydrogen bonds. A Hirshfeld surface analysis of the crystal structure indicates that the most important contributions for the crystal packing are from H.H (59.2%) and H.C/C.H (27.9%) interactions. Hydrogen bonding and van der Waals interactions are the dominant interactions in the crystal packing. Computational chemistry indicates that in the crystal, the C—HBnz.OBnzthz and C—HMthn.OBnzthz hydrogen-bond energies are 75.3 and 56.5 kJ mol−1, respectively. Density functional theory (DFT) optimized structures at the B3LYP/ 6–311 G(d,p) level are compared with the experimentally determined molecular structure in the solid state. The HOMO—LUMO behaviour was elucidated to determine the energy gap. Moreover, the antibacterial activity of the title compound was evaluated against gram-positive and gram-negative bacteria.
Keywords	crystal structure ; hydrogen bond ; benzothiazine ; antibacterial activity ; hirshfeld surface ; Chemistry ; QD1-999
Subject code	540
Language	English
Publishing date	2020-06-01T00:00:00Z
Publisher	International Union of Crystallography
Document type	Article ; Online
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Article ; Online: Loci Controlling Adaptation to Heat Stress Occurring at the Reproductive Stage in Durum Wheat

Khaoula El Hassouni / Bouchra Belkadi / Abdelkarim Filali-Maltouf / Amadou Tidiane-Sall / Ayed Al-Abdallat / Miloudi Nachit / Filippo M. Bassi

Agronomy, Vol 9, Iss 8, p

2019 Volume 414

Abstract: Heat stress occurring during the reproductive stage of wheat has a detrimental effect on productivity. A durum wheat core set was exposed to simulated terminal heat stress by applying plastic tunnels at the time of flowering over two seasons. Mean grain ... ...

Abstract	Heat stress occurring during the reproductive stage of wheat has a detrimental effect on productivity. A durum wheat core set was exposed to simulated terminal heat stress by applying plastic tunnels at the time of flowering over two seasons. Mean grain yield was reduced by 54% compared to control conditions, and grain number was the most critical trait for tolerance to this stress. The combined use of tolerance indices and grain yield identified five top performing elite lines: Kunmiki, Berghouata1, Margherita2, IDON37-141, and Ourgh. The core set was also subjected to genome wide association study using 7652 polymorphic single nucleotide polymorphism (SNPs) markers. The most significant genomic regions were identified in association with spike fertility and tolerance indices on chromosomes 1A, 5B, and 6B. Haplotype analysis on a set of 208 elite lines confirmed that lines that carried the positive allele at all three quantitative trait loci (QTLs) had a yield advantage of 8% when field tested under daily temperatures above 31° C. Three of the QTLs were successfully validated into Kompetitive Allele Specific PCR (KASP) markers and explained >10% of the phenotypic variation for an independent elite germplasm set. These genomic regions can now be readily deployed via breeding to improve resilience to climate change and increase productivity in heat-stressed areas.
Keywords	heat stress ; durum wheat ; yield ; tolerance ; fertility ; climate change ; resilience ; Agriculture ; S
Subject code	571
Language	English
Publishing date	2019-07-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Assessment of genetic diversity and population structure of an endemic Moroccan tree (Argania spinosa L.) based in IRAP and ISSR markers and implications for conservation

Pakhrou, Ouafae / Abdelkarim Filali-maltouf / Bouchra Belkadi / Chaimaa Yatrib / Leila Medraoui / Mohammed Alami

Physiology and molecular biology of plants. 2017 July, v. 23, no. 3

2017

Abstract: Argan Tree is well known for its precious oil extracted from its seeds particularly used for the nutritional and cosmetic benefits. Because of the high international demand, the argan tree suffers from overexploitation and its cultivation is rare. Thus, ... ...

Abstract	Argan Tree is well known for its precious oil extracted from its seeds particularly used for the nutritional and cosmetic benefits. Because of the high international demand, the argan tree suffers from overexploitation and its cultivation is rare. Thus, the assessment of the genetic variation of this endemic tree is critically important for designing conservation strategies. In the present study and for the first time, genetic diversity of the global natural distribution of argan tree (Argania spinosa L.) in Morocco was assessed. Four IRAP (inter-retrotransposon amplified polymorphism) primer combinations and seven ISSR (inter-simple sequence repeat) primers amplified 164 and 248 scorable polymorphic bands respectively. Polymorphic information content (PICÂ =Â 0.27), resolving power (RpÂ =Â 15) and marker index (MIÂ =Â 10.81) generated by IRAP primer combinations were almost identical to those generated by ISSR primers (PICÂ =Â 0.27, RpÂ =Â 9.16 and MIÂ =Â 12). AMOVA analysis showed that 49% of the genetic variation was partitioned within populations which is supported by Neiâs genetic differentiation (GstÂ =Â 0.5391) and the overall estimate of gene flow (Nm) being 0.4274. The STRUCTURE analysis, PCoA (principal coordinate analysis) and UPGMA (unweighted pair-group method with arithmetic mean) based on the combined data matrices of IRAP and ISSR divided the 240 argan genotypes into two groups. The strong differentiation observed might be due to the geographical distribution of argan tree. Our results provide crucial insight for genetic conservation programs of this genetic resource.
Keywords	Argania spinosa ; arithmetics ; conservation programs ; gene flow ; genetic markers ; genetic variation ; genotype ; geographical distribution ; germplasm conservation ; indigenous species ; microsatellite repeats ; oils ; population structure ; seeds ; trees ; Morocco
Language	English
Dates of publication	2017-07
Size	p. 651-661.
Publishing place	Springer India
Document type	Article
ZDB-ID	2487126-6
ISSN	0974-0430 ; 0971-5894
ISSN (online)	0974-0430
ISSN	0971-5894
DOI	10.1007/s12298-017-0446-7
Database	NAL-Catalogue (AGRICOLA)

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Article: Using microsatellite markers to map genetic diversity and population structure of an endangered Moroccan endemic tree (Argania spinosa L. Skeels) and development of a core collection

Mouhaddab, Jamila / Abdelhamid El Mousadik / Abdelkarim Filali-Maltouf / Abderrahim Ferradouss / Bouchra Belkadi / Cherkaoui El Modafar / Fouad Msanda / Saad Ibnsouda Koraichi

Plant gene. 2017 June, v. 10

2017

Abstract: The aim of the present study is to examine the genetic diversity and relationships of natural populations of Argania spinosa based on inter-simple sequence repeats (ISSRs) and simple sequence repeats (SSRs). A total of 480 trees from 24 natural ... ...

Abstract	The aim of the present study is to examine the genetic diversity and relationships of natural populations of Argania spinosa based on inter-simple sequence repeats (ISSRs) and simple sequence repeats (SSRs). A total of 480 trees from 24 natural provenances of this species were sampled from southwest and northwest Morocco. Ten ISSR primers generated a total of 151 bands of which 150 were polymorphic (99%). Four primer pairs of SSR markers amplified 172 allelic variants among the argan genotypes with 100% polymorphism. Cluster analysis based on unweighted pair-group, principal coordinate, and Bayesian-based analyses, showed that the entire provenances were divided into two main groups for both markers used. The first group contained 22 provenances of southwest regions. The second cluster included the two relic provenances of Oued Grou and Beni Snassen. There was no significant correlation between genetic distance and geographic distance. Intermicrosatellites showed a high level of genetic differentiation among provenances (Gst=0.44) while microsatellites presented moderate genetic differentiation. Based on genotyping data of ISSRs and SSRs, the constructed core collections consist of 13 and 96 genotypes representing, respectively, 2.7% and 20% of the entire A. spinosa collection. One hundred percent of the alleles present in the whole collection were present in the core sets. Our results provide an effective aid for future germplasm conservation, management strategies, and genetic association studies.
Keywords	alleles ; Argania spinosa ; cluster analysis ; genetic distance ; genetic markers ; genetic variation ; genotype ; genotyping ; germplasm conservation ; hybridization probes ; indigenous species ; microsatellite repeats ; population structure ; provenance ; trees ; Morocco
Language	English
Dates of publication	2017-06
Size	p. 51-59.
Publishing place	Elsevier B.V.
Document type	Article
ISSN	2352-4073
DOI	10.1016/j.plgene.2017.05.008
Database	NAL-Catalogue (AGRICOLA)

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