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Policy advocates commonly use income diversification strategies worldwide to address economic disturbances such as poverty. Realizing the importance of poverty reduction and the raging debate on whether the household should specialize or diversify their income, this study attempts to investigate the poverty and income diversification nexus in a tea estate of Bangladesh. A multistage sampling procedure was applied to select 1 tea estate and 382 households. Primary data was collected through interview schedule. The Simpson diversification index and Alkire-Foster multidimensional poverty index were used to measure income diversification and multidimensional poverty respectively. Additionally, this paper used the propensity score matching method to assess the causal impact of income diversification on multidimensional poverty. The findings revealed that the research area has a 35% household level income diversity, a 43% household level multidimensional poverty rate, and income diversification has a positive impact on multidimensional poverty reduction. The multidimensional poverty was reduced by 0.095% on average for income diversified households. Therefore, from a policy perspective, income diversification can be a good solution for reducing household-level multidimensional poverty. Government and other stakeholders should redesign working guidelines for tea workers regarding working hour, days and wage in such a way that they can engage in several income-generating activities apart from tea production-related activities in the tea estates.

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In cell and gene therapy, achieving the stable engraftment of an abundant and highly polyclonal population of gene-corrected cells is one of the key factors to ensure the successful and safe treatment of patients. Because integrative vectors have been associated with possible risks of insertional mutagenesis leading to clonal dominance, monitoring the relative abundance of individual vector insertion sites in patients' blood cells has become an important safety assessment, particularly in hematopoietic stem cell-based therapies. Clinical studies often express clonal diversity using various metrics. One of the most commonly used is the Shannon index of entropy. However, this index aggregates two distinct aspects of diversity, the number of unique species and their relative abundance. This property hampers the comparison of samples with different richness. This prompted us to reanalyze published datasets and to model the properties of various indices as applied to the evaluation of clonal diversity in gene therapy. A normalized version of the Shannon index, such as Pielou's index, or Simpson's probability index is robust and useful to compare sample evenness between patients and trials. Clinically meaningful standard values for clonal diversity are herein proposed to facilitate the use of vector insertion site analyses in genomic medicine practice.

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Behavioral diversity is a commonly used tool used to quantify the richness and evenness of animal behaviors and assess the effect of variables that may impact an animal's quality of life. The indices used in behavioral diversity research, and the study subjects, have not been formally reviewed. This paper aims to identify which indices are being used in behavioral diversity research, and under which scenarios, and uncover novel indices from other disciplines that could be applied to behavioral diversity. To investigate the techniques and species investigated in behavioral diversity literature, a Web of Science literature search was conducted. Two methods: behavioral richness and the Shannon-Wiener index, were the most frequently used indices, whereas the Behavioral Variability index featured rarely. While a range of species appeared in the behavioral literature, mammals were the most frequently studied Class, whereas amphibians did not feature in any papers. There are several diversity indices which did not feature in behavioral diversity including Simpson's index, and Chao. Such indices could be used to better understand animal behavioral study outputs or be used to estimate the number of 'unobserved' behaviors that an animal may express. Future studies could therefore extend beyond the Shannon-Wiener and richness indices.

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A suitable self-thinning model is fundamental to effective density control and management. Using data from 265 plot measurements in oak mixed forests in central China, we demonstrated how to estimate a suitable self-thinning line for oak mixed forests from three aspects, i.e., self-thinning models (Reineke's model and the variable density model), statistical methods (quantile regression and stochastic frontier analysis), and the variables affecting stands (topography and stand structure factors). The proposed variable density model, which is based on the quadratic mean diameter and dominant height, exhibited a better goodness of fit and biological relevance than Reineke's model for modeling the self-thinning line for mixed oak forests. In addition, the normal-truncated normal stochastic frontier model was superior to quantile regression for modeling the self-thinning line. The altitude, Simpson index, and dominant height-diameter ratio ( H d /D) also had significant effects on the density of mixed forests. Overall, a variable density self-thinning model may be constructed using stochastic frontier analysis for oak mixed forests while considering the effects of site quality and stand structure on density. The findings may contribute to a more accurate density management map for mixed forests.

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Gorai River is one of the important rivers in Bangladesh for rich aquatic biodiversity. The river is originated from the Ganges-Padma River system, a trans-boundary river between India and Bangladesh. Once the river was rich in fish biodiversity, but due to man-made and natural causes the availability of fish reduced drastically. A comprehensive analysis of fish diversity indices, gear efficiency, catch composition and decline causes of fish diversity in Gorai River, Bangladesh was accomplished. The data were collected on monthly basis from January to December 2018 from three major fishing sites of the river. A total of 62 fish and 2 prawn species under 12 orders and 24 families were recorded. Cypriniformes was the leading order consisting 27% of the total catch. The mean values of Shannon-Weaver diversity (H'), Simpson's index (1-D), Margalef's richness (d) and Pielou's evenness (J') indices were recorded as, 1.478 ± 0.495, 0.57 ± 0.197, 15.115 ± 4.435 and 0.481 ± 0.152, respectively. At the similarity of 58.7%, two groups were attained in the cluster analysis and the Non-metric Multidimensional Scaling (nMDS) showed 40% similarity among the three sites in twelve months based on the Bray-Curtis similarity matrix. The highest and lowest CPUE were recorded from seine net (5.2 ± 1.72 kg gear-1 haul-1) and hook & long lines (0.0135 ± 0.0015 kg gear-1haul-1), respectively whereas, highest and lowest gear efficiency were recorded from lift net (0.321 ± 0.036 kg gear-1person-1hour-1) and fish trap (0.0005 ± 0.0002 kg gear-1person-1hour-1), respectively. Alternatively, the highest fish catch was recorded on April (21228 ± 464.38 kg) and lowest on August (3855 ± 138.21 kg). According to the fishermen fish biodiversity of the Gorai River declined day by day due to overexploitation, destructive fishing practice, pollution, construction of obstacles for fish movement, and natural causes like siltation. Proper implementation of fish acts and regulations, use of authorized fishing gear, community-based fisheries management, sanctuary establishment and management, stocking of fish fingerling, and raising public awareness can play a great role in enhancing and conserving fish biodiversity in the Gorai River of Bangladesh.

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We introduce here a new index of diversity based on consideration of reasonable propositions that such an index should have in order to represent diversity. The behaviour of the index is compared with that of the Gini-Simpson diversity index, and is found to predict more realistic values of diversity for small communities, in particular when each species is equally represented and for small communities. The index correctly provides a measure of true diversity that is equal to the species richness across all values of species and organism numbers when all species are equally represented, as well as Hill's more stringent 'doubling' criterion when they are not. In addition, a new graphical interpretation is introduced that permits a straightforward visual comparison of pairs of indices across a wide range within a parameter space based on species and organism numbers.

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Various methods have been used to divide communities into core species and occasional or satellite species. Some methods are somewhat arbitrary, and there is evidence that many communities are more multimodal than bimodal. They also tend to rely on having multiple years of data.A completely novel method is presented that not only has no requirement for long-term datasets but can divide communities into multiple groups. It is based on probability a species is present, calculated using Simpson's index and the sequential removal of species from the data.The sequential Simpson's index method was applied to species data from a grassland insect community. It was also applied to eleven other datasets that had been divided into core and occasional species in previously published studies.The new method was found not only to be consistent with previous core-occasional assessments but also able to identify multimodality in species abundance distributions.Although ideally used with a measure of persistence (frequency of occurrence) to rank species, community structure is consistently described even with only species abundance data.The method can be applied to short or long-term datasets and can help identify multimodality and provide valuable insight into how communities change in time or space.

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AIMS: This study aims to identify the yeast species and strains which entitled an unstudied area of Spain and evaluate the yeast species diversity richness and the genetic variety. METHODS AND RESULTS: A total of 702 yeasts were isolated from different environments in a central Spanish region (La Mancha) with diverse sources of origin (food, animals, flowers and environmental sources) during spring season. Thanks to the analysis carried out by the PCR-RFLP technique and sequencing, 35 species were identified. A neighbour-joining phylogenetic tree was created based on D1/D2 sequences. Moreover 330 strains were determined by PCR-RAPD and their profiles were analysed using the bioinformatics programme BioNumerics 7·6. The Simpson's index (D) and the genetic diversity percentage were calculated with the aim of studying the richness of the species in each environment and the genetic variety in each species. CONCLUSIONS: This study has permitted to know that the majority of the species found was Diutina rugosa while the most ubiquitous was Rhodotorula mucilaginosa which expose the dispersion capability of this species. The diversity parameters has revealed that the highest species richness was associated to environmental samples and the highest genetic variety was presented in those species with better dispersion capability or a smaller number of isolates. SIGNIFICANCE AND IMPACT OF THE STUDY: This study permits to better understand the yeast communities in La Mancha region which gives a value the microbial potential of this region.

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The study was carried out to obtain information on the present status and trend of finfish diversity of the Old Brahmaputra river, Bangladesh. Samples were collected directly from a professional fishing boat caught by different nets, traps and hooks from January 2019 to December 2019. Together with 4 exotic species, a total of 49 species under 6 families were recorded. Though a biodiversity index of 3.65854 and a dominance index of 0.030929 represent the richness of ichthyo-diversity within the river, Synbranchiformes and Tetraodontiformes were not reported throughout the study period. Linear regression analysis showed a positive correlation between water height of the river and monthly abundance of the species found. Catch composition of catfishes and snakeheads slumped while barbs showed triumph over previous findings. A majority of fish recorded were within the least concern category according to IUCN (2015) but portions also belonged to critically endangered, endangered, and vulnerable categories as well. Therefore, conservation measures must be infixed in the Old Brahmaputra river to hold the fish diversity in a sustainable state.

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Objective: To understand the molecular characteristics and correlation among isolated strains of Brucella melitensis (BM) so as to improve the strategies on prevention and control of the disease in Jiangxi province. Methods: A total of 25 strains of BM isolated from human in 17 counties of Jiangxi province were analyzed by multiple locus variable-number tandem repeat analysis (MLVA) method. Results: A total of 25 strains of BM were classified into 24 independent genotypes with similarities between 67.00% and 100.00% and Simpson index between 0.000 and 0.773. There were 3 genotypes in MLVA8, including 60.00% (15/25) as 42 genotype, 32.00% (8/25) as 43 genotype, and 8.00% (2/25) as 63 genotype, respectively. There were 7 genotypes in MLVA11 identified, with 116 genotype and 125 genotype the main genotypes, accounting for 56.00% (14/25) of all the identified strains. Conclusions: Genes from all the 25 strains of BM that isolated from human being were with high genetic diversities, and various, genotypes. However, no obvious epidemiological correlation was noticed among these strains, indicating the complexity of the source of infection on Brucella in Jiangxi province.

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BACKGROUND: Present study was conducted to determine species composition of mosquitoes (larvae, pupae and adults) collected from ten different towns of Lahore from September 2014 to August 2015. METHODS: Mosquito larvae, pupae and adults (male and female) were collected by using dippers and aspirators from September 2014 to August 2015 in different sites of Lahore comprising of ten towns i.e. Iqbal, Aziz Bhatti, Data Ganj Baksh, Gulberg, Nishtar, Ravi, Samanabad, Shalimar, Wagah, and Lahore Cantonment. Mosquito larvae and adults were identified by standard entomological keys. Diversity, richness and rarity of mosquito fauna were analyzed by the Shannon, Simpson and Margalef indices respectively. RESULTS: In this study, a total of 8656 mosquitoes belonging to four genera namely Anopheles, Culex, Aedes and Mansonia were identified. Among fifteen species collected, Cx. quinquefasciatus was the most abundant species in the city having 25.8% relative abundance. However An. culicifacies s.l. (sensu lato) was reported as the least abundant species with 0.22% relative abundance. The highest diversity of mosquitoes was shown in the month of August (H= 2.25) while the lowest diversity was recorded June (H= 1.43). Extensive sewage water supported the maximum abundance of Cx. quinquifasciatus in urban areas of this city. CONCLUSIONS: This study has significantly elaborated the monthly varying species composition of mosquito fauna of this city. Hence this research will help us to find out the control strategies of mosquito borne diseases in this region.

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Since the cost of Ophiocordyceps sinensis has increased dramatically and the counterfeits may have adverse effect to health, a rapid and precise species-level DNA barcoding identification system could be a potent approach and significantly enhance the regulatory capacity. The discrimination power of three subunits sequences from nuclear ribosomal RNA gene cluster were determined by Simpson's index of discrimination using 43 wild O. sinensis fruiting bodies, pure cultures, commercial mycelium fermented powder and counterfeits. The internal transcribed spacer (ITS) sequences showed the highest variance and discrimination power among 43 samples, as determined by Simpson's index of discrimination (D = 0.972), followed by large subunit (LSU; D = 0.963) and small subunit (SSU; D = 0.921). ITS-2 sequences showed the highest discrimination power for 43 samples among ITS-1, ITS-2, and 5.8S region of ITS sequences. All O. sinensis samples were grouped into a unique ITS sequence cluster under 95% similarity and two O. sinensis samples and six non-O. sinensis samples showed false claims. Our data showed that the ITS region could provide accurate species identification for O. sinensis samples, especially when macroscopic and microscopic method could not be applied in the highly processed commercial products. Since the authentication of O. sinensis related products is essential to ensure its safety and efficacy, identification of O. sinensis through ITS sequence comparison or unique PCR amplification of the species specific target, such as the ITS region, should be considered in the next revision of Chinese pharmacopeia.

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Because biodiversity is multidimensional and scale-dependent, it is challenging to estimate its change. However, it is unclear (1) how much scale-dependence matters for empirical studies, and (2) if it does matter, how exactly we should quantify biodiversity change. To address the first question, we analysed studies with comparisons among multiple assemblages, and found that rarefaction curves frequently crossed, implying reversals in the ranking of species richness across spatial scales. Moreover, the most frequently measured aspect of diversity - species richness - was poorly correlated with other measures of diversity. Second, we collated studies that included spatial scale in their estimates of biodiversity change in response to ecological drivers and found frequent and strong scale-dependence, including nearly 10% of studies which showed that biodiversity changes switched directions across scales. Having established the complexity of empirical biodiversity comparisons, we describe a synthesis of methods based on rarefaction curves that allow more explicit analyses of spatial and sampling effects on biodiversity comparisons. We use a case study of nutrient additions in experimental ponds to illustrate how this multi-dimensional and multi-scale perspective informs the responses of biodiversity to ecological drivers.

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The recently developed PCR-based open reading frame typing (POT) method is a useful molecular typing tool. Here, we evaluated the performance of POT for molecular typing of methicillin-resistant Staphylococcus aureus (MRSA) isolates and compared its performance to those of multilocus sequence typing (MLST) and Staphylococcus protein A gene typing (spa typing). Thirty-seven MRSA isolates were collected between July 2012 and May 2015. MLST, spa typing, and POT were performed, and their discriminatory powers were evaluated using Simpson's index analysis. The MRSA isolates were classified into 11, 18, and 33 types by MLST, spa typing, and POT, respectively. The predominant strains identified by MLST, spa typing, and POT were ST8 and ST764, t002, and 93-191-127, respectively. The discriminatory power of MLST, spa typing, and POT was 0.853, 0.875, and 0.992, respectively, indicating that POT had the highest discriminatory power. Moreover, the results of MLST and spa were available after 2 days, whereas that of POT was available in 5 h. Furthermore, POT is rapid and easy to perform and interpret. Therefore, POT is a superior molecular typing tool for monitoring nosocomial transmission of MRSA.

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Measures of biological or species diversity are central to ecology and conservation biology. Although there are several commonly used indices, each has shortcomings and all vary in the relative emphasis they place on the number of species and their relative abundance. We propose utilizing Fisher Information, not as a replacement for existing indices, but as a supplement to other indices because it is sensitive to community structure. We demonstrate how Shannon's and Simpson's diversity indices quantify the diversity of two different systems and how Fisher Information can enhance the analyses by comparing, as example, body size, and phylogenetic diversity of the different communities. Fisher Information is sensitive to the order in which species are entered into the analysis, and therefore, it can detect differences in community structure. Thus, the Fisher Information index can be useful in helping understand and analyze biodiversity of ecosystems and in comparing ecological communities.

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Weighted Gini-Simpson index is an analytical tool that promises to be widely used concerning biological and economics applications, relative to the assessment of diversity measured by compositional proportions of a system defined with a finite number of elementary states characterized by positive weights. In this paper, a current literature review on the theme is presented and the mathematical properties of the index are outlined, focusing on the location of the maximizer (maximum point) and evaluation of the maximum value, with emphasis in the role of the Lagrange multiplier critical value-closely related with the harmonic mean of the weights-which is shown to be a barrier concerning the feasibility of the solution. Sequential procedures are presented, either backward or forward, which are used to obtain the correct values of the maximum point coordinates, thus allowing for the computation of the right maximum value of the index. Also, new theoretical results are provided, such as the calculus of limits and partial derivatives related to the critical solution, used to assess of the effectiveness of the algorithms herein proposed and discussed.

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BACKGROUND: To date, women are most often diagnosed with bacterial vaginosis (BV) using microscopy based Nugent scoring or Amsel criteria. However, the accuracy is less than optimal. The aim of the present study was to confirm the identity of known BV-associated composition profiles and evaluate indicators for BV using three molecular methods. METHODS: Evaluation of indicators for BV was carried out by 16S rRNA amplicon sequencing of the V5-V7 region, a tailor-made 16S rRNA oligonucleotide-based microarray, and a PCR-based profiling technique termed IS-profiling, which is based on fragment variability of the 16S-23S rRNA intergenic spacer region. An inventory of vaginal bacterial species was obtained from 40 females attending a Dutch sexually transmitted infection outpatient clinic, of which 20 diagnosed with BV (Nugent score 7-10), and 20 BV negative (Nugent score 0-3). RESULTS: Analysis of the bacterial communities by 16S rRNA amplicon sequencing revealed two clusters in the BV negative women, dominated by either Lactobacillus iners or Lactobacillus crispatus and three distinct clusters in the BV positive women. In the former, there was a virtually complete, negative correlation between L. crispatus and L. iners. BV positive subjects showed cluster profiles that were relatively high in bacterial species diversity and dominated by anaerobic species, including Gardnerella vaginalis, and those belonging to the Families of Lachnospiraceae and Leptotrichiaceae. Accordingly, the Gini-Simpson index of species diversity, and the relative abundance Lactobacillus species appeared consistent indicators for BV. Under the conditions used, only the 16S rRNA amplicon sequencing method was suitable to assess species diversity, while all three molecular composition profiling methods were able to indicate Lactobacillus abundance in the vaginal microbiota. CONCLUSION: An affordable and simple molecular test showing a depletion of the genus Lactobacillus in combination with an increased species diversity of vaginal microbiota could serve as an alternative and practical diagnostic method for the assessment of BV.

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Mutant spectrum dynamics (changes in the related mutants that compose viral populations) has a decisive impact on virus behavior. The several platforms of next generation sequencing (NGS) to study viral quasispecies offer a magnifying glass to study viral quasispecies complexity. Several parameters are available to quantify the complexity of mutant spectra, but they have limitations. Here we critically evaluate the information provided by several population diversity indices, and we propose the introduction of some new ones used in ecology. In particular we make a distinction between incidence, abundance and function measures of viral quasispecies composition. We suggest a multidimensional approach (complementary information contributed by adequately chosen indices), propose some guidelines, and illustrate the use of indices with a simple example. We apply the indices to three clinical samples of hepatitis C virus that display different population heterogeneity. Areas of virus biology in which population complexity plays a role are discussed.

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The distribution and diversity of culturable biosurfactant-producing bacteria were investigated in a wastewater treatment plant (WWTP) using the Shannon and Simpson's indices. Twenty wastewater samples were analysed, and from 667 isolates obtained, 32 were classified as biosurfactant producers as they reduced the surface tension of the culture medium (71.1 mN/m), with the lowest value of 32.1 mN/m observed. Certain isolates also formed stable emulsions with diesel, kerosene and mineral oils. The 16S ribosomal RNA (rRNA) analysis classified the biosurfactant producers into the Aeromonadaceae, Bacillaceae, Enterobacteriaceae, Gordoniaceae and the Pseudomonadaceae families. In addition, numerous isolates carried the surfactin 4'-phosphopantetheinyl transferase (sfp), rhamnosyltransferase subunit B (rhlB) and bacillomycin C (bamC) genes involved in the biosynthesis of surfactin, rhamnolipid and bacillomycin, respectively. While, biosurfactant-producing bacteria were found at all sampling points in the WWTP, the Simpson's diversity (1 - D) and the Shannon-Weaver (H) indices revealed an increase in bacterial diversity in the influent samples (0.8356 and 2.08), followed by the effluent (0.8 and 1.6094) and then the biological trickling filter (0.7901 and 1.6770) samples. Numerous biosurfactant-producing bacteria belonging to diverse genera are thus present throughout a WWTP.

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In this present study the population dynamics of the soil bacteria of some coastal villages, namely Padima, Jatimati, Chanpabani, Palsandapur, Bhagibaharampur, Duttapur, Gangadharpur, Gobindabasan, Somaibasan of Digha, West Bengal, India, was determined. In these villages the aerobic heterotrophic, Gram-negative, spore-forming, starch-hydrolyzing, Pseudomonas, nitrate-reducing, denitrifying, asymbiotic N2 fixing, nitrifying, phosphate-solubilizing bacterial populations ranged from 1.22 to 2.67 × 106, 0.09-1.63 × 105, 1.53-3.68 × 105, 2.22-4.06 × 105, 0.02-0.04 × 105, 0.35-1.33 × 105, 0.07-0.82 × 105, 0.58-2.50 × 105, 0.13-2.35 × 105, 0.05-1.9 × 105 cfu/g dry soil, respectively. The organic carbon content of the soil samples ranged from 0.61 to 0.93 %. The available nitrogen and phosphate in the soils of the study area varied from 11.2 to 29.5 and 230.8-503.09 mg/kg, respectively. The one-way ANOVA revealed significant variations (p < 0.05) in the microbial diversity with respect to different locations of the study site. Shannon-Wiener and Simpson Index of the study areas ranged from 1.56 to 1.88 and 3.85-5.73, respectively. Jatimati showed comparatively higher diversity index among the villages of the study area. From principal component analysis, three components were extracted having the Eigen values of 3.541, 1.603 and 1.391, respectively. Agglometric hierarchial cluster analysis in respect of the number of different bacterial groups in different places of the study area showed that the denitrifying, nitrate reducing, asymbiotic nitrogen-fixing and spore-forming bacteria formed a cluster while Pseudomonas differed from them forming another cluster and nitrifying, Gram negative, phosphate-solubilising and starch-hydrolyzing bacteria formed another different cluster. This variation of the soil bacteria might be dependent on the microhabitat present in different locations of the study area.