Bioinformatics: A Way Forward to Explore “Plant Omics”

Bioinformatics, a computer-assisted science aiming at managing a huge volume of genomic data, is an emerging discipline that combines the power of computers, mathematical algorithms, and statistical concepts to solve multiple genetic/biological puzzles. This science has progressed parallel to the evolution of genome-sequencing tools, for example, the next-generation sequencing technologies, that resulted in arranging and analyzing the genome-sequencing information of large genomes. Synergism of “plant omics” and bioinformatics set a firm foundation for deducing ancestral karyotype of multiple plant families, predicting genes, etc. Second, the huge genomic data can be assembled to acquire maximum information from a voluminous “omics” data. The science of bioinformatics is handicapped due to lack of appropriate computational procedures in assembling sequencing reads of the homologs occurring in complex genomes like cotton (2n = 4x = 52), wheat (2n = 6x = 42), etc., and shortage of multidisciplinary-oriented trained manpower. In addition, the rapid expansion of sequencing data restricts the potential of acquisitioning, storing, distributing, and analyzing the genomic information. In future, inventions of high-tech computational tools and skills together with improved biological expertise would provide better insight into the genomes, and this information would be helpful in sustaining crop productivities on this planet

Recycling of Steel Scraps as a Strength Enhancement Material in Concrete

The cement industry is very energy consumptive and produces CO2 and also generates greenhouse gases which are the major cause of global warming. The production of cement and the use of concrete are both rising daily. So, to protect the environment, alternate materials are required. The construction industry has several constructional byproducts and wastes as a variant of traditionally used products. In the process of production and working with steel, steel chips are formed as waste material. The best way to reduce environmental pollution and improve waste recycling is to partially replace concrete with steel chips. Due to these factors and the abundance of material, steel chips were used as a partial cement replacement at 0.5%, 1%, 1.5%, and 2% by the volume of cement. The properties such as compressive strength, split tensile strength, flexural beam strength, and modulus of elasticity are checked after 7, 14, and 28 days. Comparing these qualities to those of control molds showed that by raising the percentage of steel chips in the concrete up to 1.5%, mechanical characteristics are improved; however, when the percentage is increased to 2%, mechanical properties are also affected

Detection of single nucleotide polymorphisms in the conserved ESTs regions of Gossypium arboreum

Exploring genetic variation in Gossypium arboreum L. germplasm is useful as it contains many important genes conferring resistance to different stresses. In limited earlier studies, low level of genetic diversity was found by using conventional DNA marker systems which may impede future genome mapping studies. In the present investigation, we explored the extent of Single Nucleotide Polymorphisms (SNP) among 30 conserved regions of Expressed Sequence Tags (EST) of low copy genes between two genotypes of G. arboreum. A total of 27 SNPs including 21 substitutions and 6 Insertions and deletions (Indels) in 7804 bp were found between these genotypes with a frequency of one SNP per 371 bp and one Indel after every 1300 bp. Out of these SNPs, 52% were transitions, whilst 48% SNPs were transversion. In conclusion, SNPs are expedient markers that can explore polymorphism in highly conserved sequences where other markers are not effective

Temperature Extremes in Cotton Production and Mitigation Strategies

Cotton is an important cash crop, providing raw material for different industries and plays crucial role in the economy of several countries. It requires optimum temperature for economic production and causes reduced yield otherwise. Extreme temperature, more importantly, high temperature causes serious yield reduction in cotton by affecting its physiology, biochemistry and quality leading to poor agronomic produce. Freezing temperature also affect the germination percentage and seedling establishment. Several breeding and genomics based studies were conducted to improve the cotton production under high and low temperature stress in cotton. Here we overviewed several agronomic practices to mitigate the effect of extreme temperature, and multiple breeding and molecular approaches to enhance the genetic potential of cotton for temperature tolerance by Marker assisted selection or transgenic approach

QTL mapping for physiology, yield and plant architecture traits in cotton (Gossypium hirsutum L.) grown under well-watered versus water-stress conditions

Increasing scarcity of irrigation water is a major threat to sustainable production of cotton (Gossypium hirsutum L.). Identifying genomic regions contributing to abiotic stress tolerance will help develop cotton cultivars suitable for water-limited regions through molecular marker-assisted breeding. A molecular mapping F2 population was derived from an intraspecific cross of the drought sensitive G. hirsutum cv. FH-901 and drought tolerant G. hirsutum cv. RH-510. Field data were recorded on physiological traits (osmotic potential and osmotic adjustment); yield and its component traits (seedcotton yield, number of bolls/plant and boll weight); and plant architecture traits (plant height and number of nodes per plant) for F2, F2:3 and F2:4 generations under well-watered versus water-limited growth conditions. The two parents were surveyed for polymorphism using 6500 SSR primer pairs. Joinmap3.0 software was used to construct linkage map with 64 polymorphic markers and it resulted into 35 markers mapped on 12 linkage groups. QTL analysis was performed by composite interval mapping (CIM) using QTL Cartographer2.5 software. In total, 7 QTLs (osmotic potential 2, osmotic adjustment 1, seedcotton yield 1, number of bolls/plant 1, boll weight 1 and plant height 1) were identified. There were three QTLs (qtlOP-2, qtlOA-1, and qtlPH-1) detected only in water-limited conditions. Two QTLs (qtlSC-1 and qtlBW-1) were detected for relative values. Two QTLs (qtlOP-1 and qtlBN-1) were detected for well-watered treatment. Significant QTLs detected in this study can be employed in MAS for molecular breeding programs aiming at developing drought tolerant cotton cultivars

Genetic Mapping in Cotton

The genus Gossypium provides natural fiber for textile industry worldwide. Genetic improvement in cotton for traits of interest is not up to mark due to scarcity of adequate information about fiber production and quality. Use of DNA markers for overcoming the issues of selection associated with complex traits is the ultimate choice which may lead to initiate breeding by design. Numerous marker-trait associations have been identified for economical traits using linkage analysis in cotton. Currently there is need for developing high-density genetic maps using next-generation sequencing approaches together with genome-wide association studies (GWAS). Efforts have been started in this direction and several QTLs including fiber quality, yield traits, plant architecture, stomatal conductance and verticillium wilt resistance were identified. This chapter narrates genetic diversity, QTL mapping, association mapping and QTLs related to fiber quality traits. The incorporation of various genomic approaches and previously described marker strategies will pave the way for increase in fiber production

What can motivate Lady Health Workers in Pakistan to engage more actively in tuberculosis case-finding?

BACKGROUND: Many interventions to motivate community health workers to perform better rely on financial incentives, even though it is not clear that monetary gain is the main motivational driver. In Pakistan, Lady Health Workers (LHW) are responsible for delivering community level primary healthcare, focusing on rural and urban slum populations. There is interest in introducing large-scale interventions to motivate LHW to be more actively involved in improving tuberculosis case-finding, which is low in Pakistan. METHODS: Our study investigated how to most effectively motivate LHW to engage more actively in tuberculosis case-finding. The study was embedded within a pilot intervention that provided financial and other incentives to LHW who refer the highest number of tuberculosis cases in three districts in Sindh province. We conducted semi-structured interviews with 20 LHW and 12 health programme managers and analysed these using a framework categorising internal and external sources of motivation. RESULTS: Internal drivers of motivation, such as religious rewards and social recognition, were salient in our study setting. While monetary gain was identified as a motivator by all interviewees, programme managers expressed concerns about financial sustainability, and LHW indicated that financial incentives were less important than other sources of motivation. LHW emphasised that they typically used financial incentives provided to cover patient transport costs to health facilities, and therefore financial incentives were usually not perceived as rewards for their performance. CONCLUSIONS: This study indicated that interventions in addition to, or instead of, financial incentives could be used to increase LHW engagement in tuberculosis case-finding. Our finding about the strong role of internal motivation (intrinsic, religious) in Pakistan suggests that developing context-specific strategies that tap into internal motivation could allow infectious disease control programmes to improve engagement of community health workers without being dependent on funding for financial incentives