Dig up tall fescue plastid genomes for the identification of morphotype-specific DNA variants.

BACKGROUND: Tall fescue (Festuca arundinacea Schreb.) is an important cool-season perennial grass species. Hexaploid tall fescue has three distinct morphotypes used either as forage or turf purposes. Its chloroplast genome is conserved due to it being maternally inherited to the next generation progenies. To identify morphotype-specific DNA markers and the genetic variations, plastid genomes of all three tall fescue morphotypes, i.e., Continental cv. Texoma MaxQ II, Rhizomatous cv. Torpedo, and Mediterranean cv. Resolute, have been sequenced using Illumina MiSeq sequencing platform. RESULTS: The plastid genomes of Continental-, Rhizomatous-, and Mediterranean tall fescue were assembled into circular master molecules of 135,283 bp, 135,336 bp, and 135,324 bp, respectively. The tall fescue plastid genome of all morphotypes contained 77 protein-coding, 20 tRNAs, four rRNAs, two pseudo protein-coding, and three hypothetical protein-coding genes. We identified 630 SNPs and 124 InDels between Continental and Mediterranean, 62 SNPs and 20 InDels between Continental and Rhizomatous, and 635 SNPs and 123 InDels between Rhizomatous and Mediterranean tall fescue. Only four InDels in four genes (ccsA, rps18, accD, and ndhH-p) were identified, which discriminated Continental and Rhizomatous plastid genomes from the Mediterranean plastid genome. Here, we identified and reported eight InDel markers (NRITCHL18, NRITCHL35, NRITCHL43, NRITCHL65, NRITCHL72, NRITCHL101, NRITCHL104, and NRITCHL110) from the intergenic regions that can successfully discriminate tall fescue morphotypes. Divergence time estimation revealed that Mediterranean tall fescue evolved approximately 7.09 Mya, whereas the divergence between Continental- and Rhizomatous tall fescue occurred about 0.6 Mya. CONCLUSIONS: To our knowledge, this is the first report of the assembled plastid genomes of Rhizomatous and Mediterranean tall fescue. Our results will help to identify tall fescue morphotypes at the time of pre-breeding and will contribute to the development of lawn and forage types of commercial varieties.

An assessment of disability and quality of life in people with spinal cord injury upon discharge from a Bangladesh rehabilitation unit.

DESIGN: Cross-sectional. OBJECTIVES: The purpose of the study was to determine the level of disability and quality of life of people with spinal cord injury at the end of their inpatient rehabilitation at a rehabilitation center in Bangladesh. These outcomes were considered indicators of successful rehabilitation and a basis for comparing the success of reintegration into community. SETTING: Center for the Rehabilitation of the Paralyzed, Bangladesh. METHODS: Two standard structured questionnaires, the WHODAS 2.0 and WHOQOL-BREF, was used to collect data to assess level of disability and quality of life (QOL). Data were analyzed using Mann-Whitney-U test and Kruskal-Wallis test. RESULTS: One hundred participants (91 men and 9 women) with SCI were recruited. Just prior to discharge from in-patient rehabilitation at CRP people with SCI perceived themselves overall as having on average a mild level of disability, and good QOL in physical, psychological, and environmental health domains. They indicated poor QOL in the social health domain. There were some specific differences in various WHODAS 2.0 Domains and overall scores when comparing age, gender, type and level of injury, occupation, and income. Between-group comparisons indicated that male participants had a significantly higher quality of life in the Environmental Health Domain and those with a paraplegic injury had a significantly higher quality of life in the Physical Health Domain. CONCLUSION: By the end of their rehabilitation people with SCI had a relatively positive perception of level of disability and QOL. However, the results of other research has found that post-discharge their disability level increase and QOL decrease across all domains. Hence, it is recommended that more monitoring of level of disability and QOL is conducted post-discharge, along with a greater focus on community-based rehabilitation strategies and procedures to contribute to long-term reduction in level of disability and improved QOL.

High index core flat fiber surface plasmon resonance bio-sensor.

Due to tremendous design flexibility and ease of light control capability, the photonic crystal fiber offers efficient, flexible, and miniaturized plasmonic biosensors with attractive features. In this work, a high index (GeO2 doped silica) core flat fiber is proposed and analyzed for RI sensing ranging from 1.53 to 1.60. A rectangular analyte channel is created on top of a flat fiber to better handle the liquid analyte. To introduce the plasmonic effect, TiO2 and gold are deposited to the analyte channel. The sensing performance is carried out for two operating wavelengths, as two peaks are obtained for each analyte. The second operating wavelength shows better sensing performance than the first one. However, the proposed sensor offers average wavelength sensitivity of 5000 nm/RIU with a sensor resolution of 2×10-05 RIU. In addition, the proposed sensor shows identical linearity, which is quite rare in prior sensors. Moreover, the proposed flat sensor provides outstanding detection accuracy of 0.01nm-1, detection limit of 79.28 nm, signal to noise ratio of -4.1497dB, and figure of merit of 50RIU-1. Owing to outstanding sensing performance and a unique detection range, this sensor can be effectively used in biological and organic analyte sensing applications.

Incidence, severity and time course of pressure injuries over the first two years following discharge from hospital in people with spinal cord injuries in Bangladesh.

DESIGN: Cohort study embedded in a clinical trial. SETTING: Community, Bangladesh. OBJECTIVES: To determine the incidence, severity and time course of pressure injuries over the first two years following discharge from hospital in people with spinal cord injuries (SCI) in Bangladesh. METHODS: Participants (n = 186) were contacted by telephone 39 times and assessed face-to-face 4 to 6 times over the two years following discharge. At each point of contact the presence and severity of pressure injuries were determined using the Pressure Ulcer Scale for Healing (PUSH). Survival analyses were conducted to determine the time course of development of pressure injuries and recovery from pressure injuries. Lasso regression was used to construct multivariable prediction models. RESULTS: Seventy-seven participants (41%; 95% CI 34% to 49%) developed at least one pressure injury in the first two years after discharge (incidence rate 0.27 per person-year, 95% CI 0.22 to 0.34). Most pressure injuries were on the sacrum (23%). Pressure injuries took a median (IQR) of 40 (29 to 57) days to heal. The median (IQR) peak PUSH score was 11.0/17 (8.0 to 13.5). The multivariable prediction models had poor predictive properties (maximum c-statistic 0.75). CONCLUSION: Pressure injuries impose a large health burden on people with SCI in Bangladesh. However, they are difficult to predict, treat and prevent. Further research is needed to identify who is at most risk and to find solutions for the treatment and prevention of pressure injuries in Bangladesh and other low-middle income countries.

Multimodal Hybrid Deep Learning Approach to Detect Tomato Leaf Disease Using Attention Based Dilated Convolution Feature Extractor with Logistic Regression Classification.

Automatic leaf disease detection techniques are effective for reducing the time-consuming effort of monitoring large crop farms and early identification of disease symptoms of plant leaves. Although crop tomatoes are seen to be susceptible to a variety of diseases that can reduce the production of the crop. In recent years, advanced deep learning methods show successful applications for plant disease detection based on observed symptoms on leaves. However, these methods have some limitations. This study proposed a high-performance tomato leaf disease detection approach, namely attention-based dilated CNN logistic regression (ADCLR). Firstly, we develop a new feature extraction method using attention-based dilated CNN to extract most relevant features in a faster time. In our preprocessing, we use Bilateral filtering to handle larger features to make the image smoother and the Ostu image segmentation process to remove noise in a fast and simple way. In this proposed method, we preprocess the image with bilateral filtering and Otsu segmentation. Then, we use the Conditional Generative Adversarial Network (CGAN) model to generate a synthetic image from the image which is preprocessed in the previous stage. The synthetic image is generated to handle imbalance and noisy or wrongly labeled data to obtain good prediction results. Then, the extracted features are normalized to lower the dimensionality. Finally, extracted features from preprocessed data are combined and then classified using fast and simple logistic regression (LR) classifier. The experimental outcomes show the state-of-the-art performance on the Plant Village database of tomato leaf disease by achieving 100%, 100%, 96.6% training, testing, and validation accuracy, respectively, for multiclass. From the experimental analysis, it is clearly demonstrated that the proposed multimodal approach can be utilized to detect tomato leaf disease precisely, simply and quickly. We have a potential plan to improve the model to make it cloud-based automated leaf disease classification for different plants.

Farmers' fertilizer use gaps relative to government recommendations in the saline coastal zone of the Ganges Delta.

Overuse or underuse of nutrients relative to recommendations is a likely cause of crop yield gaps and an impediment to the achievement of food security. Government-endorsed recommendations are developed to deliver the best evidence-based advice on balanced fertilizer; however, deviations of farmers' nutrient use from the recommendations are rarely examined. This study chose the salt-affected coastal zone of the Ganges Delta, where low crop productivity and cropping intensity by smallholders limit their income, to determine current nutrient use gaps for the first time of three cropping patterns in two representative districts of Bangladesh. A total of 246 farms were surveyed from three farm sizes. Farmers' nutrient use gaps were compared with Fertilizer Recommendation Guides published in 2012 (FRG-2012) and 2018 (FRG-2018). Relative to FRG-2012 recommendations, farmers used 12%, 70%, and 11% overdoses of N, P, and K, respectively, under two fully rice-based cropping patterns, but the level of overdoses increased with farm size. Rates of K (14%), S (28%), and Zn use were below the FRG-2012 recommendations, especially for the smallest category of farms. However, the FRG-2018, increased recommended N (5%), K (62%), S (12%), and Zn rates but reduced P (25%) rates for fully rice-based cropping patterns. In contrast with rice, regardless of farm size, farmers applied overdose nutrients to watermelon but compensated with underdoses in the subsequent monsoon rice implying that farmers prioritized fertilizer expenditure on the most profitable crop. For the cropping pattern with watermelon, farmers could reduce the use of N (69%) and P (46%) and increase the use of K (48%), S (5%), and B. Reducing NPK use gaps can save treasury for both the farmers and the governments by 39.1 and 73.8 USD ha-1, respectively, under fully rice-based cropping patterns. Finally, our findings suggest there is scope to promote crop yields and sustainable intensification through balanced fertilizer use in a vulnerable saline region. Supplementary Information: The online version contains supplementary material available at 10.1007/s13593-022-00797-1.

The cost of providing a community-based model of care to people with spinal cord injury, and the healthcare costs and economic burden to households of spinal cord injury in Bangladesh.

DESIGN: Descriptive. SETTING: Community, Bangladesh. OBJECTIVES: To determine the costs associated with providing a community-based model of care delivered as part of the CIVIC trial to people discharged from hospital with recent spinal cord injury (SCI), and to determine the economic burden to households. METHODS: Records were kept of the costs of providing a community-based model of care to participants of the CIVIC trial. Data were also collected at discharge and 2 years post discharge to capture out-of-pocket healthcare costs over the preceding 2 years, and the number of participants suffering catastrophic health expenditure and illness-induced poverty. RESULTS: The mean cost of providing the community-based model of care to participants assigned to the intervention group (n = 204) was US$237 per participant. The mean out-of-pocket healthcare cost over the first 2 years post discharge was US$472 per participant (n = 410), and US$448 per control participant (n = 206). Median (IQR) equivalent annual household incomes prior to SCI and at 2 years post discharge were US$721 (US$452-1129) and US$464 (US$214-799), respectively. Of the 378 participants alive at 2 years, 324 (86%) had catastrophic health expenditure, and 161 of 212 participants who were not in poverty prior to injury (76%) were pushed into illness-induced poverty within 2 years of injury. CONCLUSION: The cost of providing community-based support to people with SCI for 2 years post discharge in Bangladesh is relatively inexpensive but an overwhelming majority of households rapidly experience financial catastrophe, and most fall into poverty.

A community-based intervention to prevent serious complications and death 2 years after discharge in people with spinal cord injury in Bangladesh (CIVIC): a randomised trial.

STUDY DESIGN: Randomised controlled trial. OBJECTIVES: To determine the effectiveness of a sustainable community-based intervention designed to prevent serious complications and death 2 years after discharge in people with spinal cord injury in Bangladesh. SETTING: Bangladesh. METHODS: A pragmatic randomised controlled trial was undertaken. People who had sustained a spinal cord injury in the preceding 2 years, were wheelchair-dependent, and were about to be discharged from hospital in Bangladesh were recruited and randomised to an Intervention or Control group using a concealed allocation procedure stratified by level of lesion (tetraplegia/paraplegia). Participants in the Intervention group received 36 phone calls and three home visits over the first 2 years following discharge. All participants received usual post-discharge care. Survival status and date of death were determined by blinded assessors 2 years after randomisation. RESULTS: Between July 2015 and March 2018, 410 participants were randomised (204 to Intervention, 206 to Control). There was no loss to follow up. At 2 years, 15 (7.4%) participants in the Intervention group and 16 (7.8%) participants in the Control group had died (hazard ratio from unadjusted Cox model = 0.93 [95% CI, 0.46 to 1.89]; p from log rank test 0.85). There were no clinically important or statistically significant average causal effects of intervention on the incidence or severity of complications. CONCLUSION: A program of community-based care for people with recent spinal cord injury in Bangladesh involving frequent phone contact and occasional in-person contact with a health professional after discharge from hospital is no better at preventing death at 2 years than usual care.

Whole-genome sequencing reveals uniqueness of black-hulled and straw-hulled weedy rice genomes.

KEY MESSAGE: Both SH and BHA weedy rice genotypes evolved independently and have distinct genomic composition. Different genetic mechanisms may be responsible for their competitiveness and adaptation to diverse environmental conditions. Two major types of weedy rice are recognized in the USA based on morphology: straw-hull (SH) and black-hull awned (BHA) weedy rice. We performed whole-genome resequencing of a SH weedy rice 'PSRR-1', a BHA weedy rice 'BHA1115', and a japonica cultivar 'Cypress' to delineate genome-wide differences and their relevance to genetics and evolution of weedy attributes. The high-quality reads were uniformly distributed with 82-88% genome coverage. The number of genotype-specific SNPs and InDels was highest in Cypress, followed by BHA1115 and PSRR-1. However, more genes were affected in BHA1115 compared with other two genotypes which is evident from the number of high-impact SNPs and InDels. Haplotype analysis of selected genes involved in domestication, adaptation, and agronomic performance not only differentiated SH from BHA weedy rice and supported evolution of weedy rice through de-domestication, but also validated the function of several genes such as qAn-1, qAn-2, Bh4, Rc, SD1, OsLG1, and OsC1. Several candidate genes were identified for previously reported seed dormancy and seed shattering QTLs. The SH and BHA weedy rice have distinct genomic composition, and the BHA weedy rice likely diverged earlier than SH weedy rice. The accumulation of plant development, reproduction, and defense-related genes in weedy rice possibly helped them to compete, survive, and spread under a wide range of environmental conditions by employing novel and diverse mechanisms. The genomic resources will be useful for both weed management and rice improvement by exploring the molecular basis of key agronomic, adaptive, and domestication attributes.

Loss of work-related income impoverishes people with SCI and their families in Bangladesh.

STUDY DESIGN: Cross-sectional study. OBJECTIVES: To determine the degree of impoverishment of people with spinal cord injury (SCI) and their families in Bangladesh caused by loss of work-related income following injury. SETTING: Spinal cord injury centre, Bangladesh. METHODS: A total of 410 wheelchair-dependent people with recent SCI about to be discharged from a hospital in Bangladesh were interviewed to determine the size of their families, their incomes from paid work prior to injury and the incomes of their family members. These data were used to calculate income per family unit and per family member prior to and immediately after injury. RESULTS: Ninety percent of the participants were men, 98% were from rural areas of Bangladesh and 58% were manual labours prior to injury. Median (interquartile range, IQR) family size was 5 (4-6) people. Prior to injury, 74% of participants were the main income earners for their families and 50% provided the only source of income for their families. Participants' median (IQR) monthly income prior to injury was US$106 (US$60-US$180) per person and family members' income was US$30 (US$19-US$48) per person. After injury, the median income (IQR) of each family member dropped to US$0 (US$0-US$18) placing 91% of families below the extreme poverty line of US$37.50 per person per month (equivalent to US$1.25 per day). CONCLUSION: In Bangladesh, SCI have profound financial implications for individuals and their families and causes extreme poverty. This is because those most often injured are young and the main income earners for their families.

The effects of 10,000 voluntary contractions over 8 weeks on the strength of very weak muscles in people with spinal cord injury: a randomised controlled trial.

STUDY DESIGN: A multi-centred, single-blinded randomised controlled trial. OBJECTIVES: To determine the effect of 10,000 voluntary contractions over 8 weeks on the strength of very weak muscles in people with spinal cord injury (SCI). SETTINGS: Seven hospitals in Australia and Asia. METHODS: One hundred and twenty people with recent SCI undergoing inpatient rehabilitation were randomised to either a Treatment or Control Group. One major muscle group from an upper or lower limb was selected if the muscle had grade 1 or grade 2 strength on a standard six-point manual muscle test. Participants allocated to the Treatment Group performed 10,000 isolated contractions of the selected muscle group, as well as usual care in 48 sessions over 8 weeks. Participants allocated to the Control Group received usual care alone. Participants were assessed at baseline and 8 weeks by a blinded assessor. The primary outcome was voluntary muscle strength on a 13-point manual muscle test. There were three secondary outcomes capturing therapists' and participants' perceptions of strength and function. RESULTS: The mean between-group difference of voluntary strength at 8 weeks was 0.4/13 points (95% confidence interval -0.5 to 1.4) in favour of the Treatment Group. There were no notable between-group differences on any secondary outcome. CONCLUSION: Ten thousand isolated contractions of very weak muscles in people with SCI over 8 weeks has either no or a very small effect on voluntary strength.

Understanding how a community-based intervention for people with spinal cord injury in Bangladesh was delivered as part of a randomised controlled trial: a process evaluation.

DESIGN: Mixed methods study SETTING: Community, Bangladesh OBJECTIVES: To understand how a community-based intervention for people with spinal cord injury (SCI) in Bangladesh was delivered as part of a randomised controlled trial and to gauge the perceptions of participants and healthcare professionals to the intervention. METHODS: A community-based intervention was administered to 204 participants as part of a large randomised controlled trial (called the CIVIC trial). Case-managers followed-up participants with regular telephone calls and home visits over the first 2 years after discharge. The following data were collected alongside the trial: (i) chart audit of telephone calls and home visits (ii) recordings of 20 telephone calls (iii) interviews with 14 Intervention participants and four healthcare professionals including three case-managers. RESULTS: Participants received the target number of telephone calls and home visits. Pressure injuries were identified as a problem during at least one telephone call by 43% of participants. Participants and case-managers valued regular telephone calls and home visits, and believed that calls and visits prevented complications and alleviated social isolation. Participants trusted case-managers and were confident in the care and advice provided. Case-managers expressed concerns that people with SCI in Bangladesh face many problems impacting on well-being and motivation stemming from poverty, limited employment opportunities, societal attitudes and inaccessible environments. CONCLUSION: A community-based intervention involving regular telephone calls and home visits was administered as intended and was well received by the recipients of the care. Nonetheless, people with SCI in Bangladesh face economic and social problems which cannot be fully addressed by this type of intervention alone.

A prediction model to identify people with spinal cord injury who are at high risk of dying within 5 years of discharge from hospital in Bangladesh.

STUDY DESIGN: Mixed retrospective and prospective cohort study. OBJECTIVES: To determine 5-year survival after hospitalisation with spinal cord injury (SCI) in Bangladesh and to develop a prediction model to identify people at high risk of dying within 5 years. SETTING: Bangladesh. METHODS: Medical records were used to identify people with SCI admitted to a hospital in Bangladesh in 2011. Participants or their family members were contacted >5 years after discharge to determine vital status or date of death. Survival from time of discharge was estimated with Kaplan-Meier curves. A linear model of the log odds of death within 5 years of discharge was constructed and internally validated. RESULTS: Of the 345 people who were admitted and survived to discharge in 2011, 342 (99%) were accounted for 5 years later: 74 (22%) had died (survival = 78%; 95% CI 74-82%). Sixty nine of the 223 participants who were wheelchair-dependent at discharge had died (survival = 69%; 95% CI 62-75%). A parsimonious model predicted survival as a function of age and mode of mobility at discharge (wheelchair-dependent or ambulant). The odds of dying increased by a factor of 1.6 (95% CI, 1.3-2.0) with every decade of age and by a factor of 12.6 (95% CI, 4.8-32.9) if wheelchair-dependent. The model had good calibration and discrimination. CONCLUSION: The risk of dying after discharge from hospital with SCI in Bangladesh is high, especially among older, wheelchair-dependent people. A simple prediction model discriminates those at high risk of dying within 5 years.

Health status, quality of life and socioeconomic situation of people with spinal cord injuries six years after discharge from a hospital in Bangladesh.

STUDY DESIGN: Cross-sectional analysis of a mixed retrospective and prospective inception cohort study. OBJECTIVES: To determine health status, quality of life and socioeconomic situation of people with spinal cord injuries (SCI) 6 years after discharge from a hospital in Bangladesh. SETTING: Bangladesh. METHODS: All patients alive 6 years after discharge from a hospital in Bangladesh were interviewed using the SF12 health survey, the SCI Secondary Conditions Scale, the Centre for Epidemiologic Studies Depression Scale (CESD), and the participation in society items of World Health Organisation Disability Assessment Schedule (WHODAS 2.0). Additional questions determined participants' socioeconomic and employment status. RESULTS: The cohort comprised 260 participants: 145 used wheelchairs for mobility and 115 were able to walk at discharge. The median (IQR) Mental and Physical Component scores for the SF12 were 54 (49-57) and 44 (40-51) points, respectively. The median scores for the SCI Secondary Conditions Scale, CESD and WHODAS 2.0 were 8 (4-13), 7 (4-13) and 12 (6-17) points, respectively. Fourteen percent of all participants and 23% of those who used wheelchairs had a pressure ulcer at the time of interview. Forty-four percent of participants were unemployed and 65% were living below the poverty line (median (IQR) income, USD 0 (0-91)) per month. CONCLUSION: Many people with SCI in Bangladesh are unemployed and living in poverty with a reduced quality of life and participation. Pressure ulcers are a common complication.

Exploring post-COVID-19 health effects and features with advanced machine learning techniques.

COVID-19 is an infectious respiratory disease that has had a significant impact, resulting in a range of outcomes including recovery, continued health issues, and the loss of life. Among those who have recovered, many experience negative health effects, particularly influenced by demographic factors such as gender and age, as well as physiological and neurological factors like sleep patterns, emotional states, anxiety, and memory. This research aims to explore various health factors affecting different demographic profiles and establish significant correlations among physiological and neurological factors in the post-COVID-19 state. To achieve these objectives, we have identified the post-COVID-19 health factors and based on these factors survey data were collected from COVID-recovered patients in Bangladesh. Employing diverse machine learning algorithms, we utilised the best prediction model for post-COVID-19 factors. Initial findings from statistical analysis were further validated using Chi-square to demonstrate significant relationships among these elements. Additionally, Pearson's coefficient was utilized to indicate positive or negative associations among various physiological and neurological factors in the post-COVID-19 state. Finally, we determined the most effective machine learning model and identified key features using analytical methods such as the Gini Index, Feature Coefficients, Information Gain, and SHAP Value Assessment. And found that the Decision Tree model excelled in identifying crucial features while predicting the extent of post-COVID-19 impact.

The genome and transcriptome of perennial ryegrass mitochondria.

BACKGROUND: Perennial ryegrass (Lolium perenne L.) is one of the most important forage and turf grass species of temperate regions worldwide. Its mitochondrial genome is inherited maternally and contains genes that can influence traits of agricultural importance. Moreover, the DNA sequence of mitochondrial genomes has been established and compared for a large number of species in order to characterize evolutionary relationships. Therefore, it is crucial to understand the organization of the mitochondrial genome and how it varies between and within species. Here, we report the first de novo assembly and annotation of the complete mitochondrial genome from perennial ryegrass. RESULTS: Intact mitochondria from perennial ryegrass leaves were isolated and used for mtDNA extraction. The mitochondrial genome was sequenced to a 167-fold coverage using the Roche 454 GS-FLX Titanium platform, and assembled into a circular master molecule of 678,580 bp. A total of 34 proteins, 14 tRNAs and 3 rRNAs are encoded by the mitochondrial genome, giving a total gene space of 48,723 bp (7.2%). Moreover, we identified 149 open reading frames larger than 300 bp and covering 67,410 bp (9.93%), 250 SSRs, 29 tandem repeats, 5 pairs of large repeats, and 96 pairs of short inverted repeats. The genes encoding subunits of the respiratory complexes - nad1 to nad9, cob, cox1 to cox3 and atp1 to atp9 - all showed high expression levels both in absolute numbers and after normalization. CONCLUSIONS: The circular master molecule of the mitochondrial genome from perennial ryegrass presented here constitutes an important tool for future attempts to compare mitochondrial genomes within and between grass species. Our results also demonstrate that mitochondria of perennial ryegrass contain genes crucial for energy production that are well conserved in the mitochondrial genome of monocotyledonous species. The expression analysis gave us first insights into the transcriptome of these mitochondrial genes in perennial ryegrass.

HARDC : A novel ECG-based heartbeat classification method to detect arrhythmia using hierarchical attention based dual structured RNN with dilated CNN.

Deep learning-based models have achieved significant success in detecting cardiac arrhythmia by analyzing ECG signals to categorize patient heartbeats. To improve the performance of such models, we have developed a novel hybrid hierarchical attention-based bidirectional recurrent neural network with dilated CNN (HARDC) method for arrhythmia classification. This solves problems that arise when traditional dilated convolutional neural network (CNN) models disregard the correlation between contexts and gradient dispersion. The proposed HARDC fully exploits the dilated CNN and bidirectional recurrent neural network unit (BiGRU-BiLSTM) architecture to generate fusion features. As a result of incorporating both local and global feature information and an attention mechanism, the model's performance for prediction is improved. By combining the fusion features with a dilated CNN and a hierarchical attention mechanism, the trained HARDC model showed significantly improved classification results and interpretability of feature extraction on the PhysioNet 2017 challenge dataset. Sequential Z-Score normalization, filtering, denoising, and segmentation are used to prepare the raw data for analysis. CGAN (Conditional Generative Adversarial Network) is then used to generate synthetic signals from the processed data. The experimental results demonstrate that the proposed HARDC model significantly outperforms other existing models, achieving an accuracy of 99.60%, F1 score of 98.21%, a precision of 97.66%, and recall of 99.60% using MIT-BIH generated ECG. In addition, this approach significantly reduces run time when using dilated CNN compared to normal convolution. Overall, this hybrid model demonstrates an innovative and cost-effective strategy for ECG signal compression and high-performance ECG recognition. Our results indicate that an automated and highly computed method to classify multiple types of arrhythmia signals holds considerable promise.

Fertilizer use gaps of women-headed households under diverse rice-based cropping patterns: Survey-based evidence from the Eastern Gangetic Plain, South Asia.

Women-headed households (WHHs) have limited access to agricultural inputs and extension services relative to male-headed households (MHHs) which may lead to yield gaps, poorer livelihoods and greater food insecurity. Since lower fertilizer use by WHHs will restrict crop yield, we examined how limited access to fertilizer inputs and extension services was reflected in nutrient use gaps relative to Government recommendations. A total of 80 WHHs were randomly selected for interview from four Agro-ecological Zones (AEZs) covering five representative districts of Bangladesh to assess, for the first time, nutrient use gaps of WHHs under five rice-based cropping patterns. Data collected from 576 MHHs (reported elsewhere) was also utilized to examine nutrient use gaps, crop yields and farm income between MHHs and WHHs. The nutrient use rates were compared with the government Fertilizer Recommendation Guides (FRG): FRG-2012 and FRG-2018. The WHHs underuse N, P, K, S and Zn under fully rice-based cropping patterns, while MHHs overuse those nutrients, but WHH tend to overuse N, P, and K for patterns with potato and watermelon crops. WHHs seem to prioritize high-value crops for fertilizer use, but even yield was 14%, 11%, 17% and 15% lower for irrigated rice, maize, potato and watermelon, respectively compared to smallholder MHHs under diverse rice-based cropping patterns. Overall, WHHs had 10% and 14% lower farm incomes than MHHs under fully rice-based and high-value cropping patterns, respectively. Financial losses for both WHHs and the government due to overuse of NPK on high-value potato crops were estimated at around 63 and 115 USD ha-1, respectively. However, the socio-demographic information suggested that effective extension services targeted to WHH, easing of social restrictions on their mobility, access of WHHs to fertilizers at Govt. fixed price and improved financial capability through better credit access could bring WHHs towards balanced fertilizer use practices in the EGP.

Multidisciplinary Conservative Treatment Outcomes of in-Patient Physiotherapy Set-Up Among Patients with Lumbar Disc Herniation in Dhaka City, Bangladesh: A Retrospective, Cross-Sectional Study.

Background: The study aimed to determine the outcome of Multidisciplinary physiotherapist-led conservative treatment of lumbar disc herniation at an in-patient set-up of a specialized spine center in Dhaka, Bangladesh. Methods: This was a retrospective cross-sectional study of 228 cases completing treatment and follow-up sessions. The outcome was evaluated as pain at rest and five different functional positions, neurological recovery, and Magnetic resonance imaging (MRI) changes during discharge and follow-up. Results: 80.3% had a complete recovery with a typical motor and sensory status, no limitations in straight leg raise (SLR), no cauda equina symptom (CES), and no or <3 pain during more than 30 minutes of daily living activities. Statistically significant changes were noted at all outcome measures at the follow-up (day 90), compared to baseline (day 1) P<0.01. In the posthoc tests, pain, SLR, and CES had the most significant improvement at discharge (day 12) compared to the baseline (P < 0.01) and at follow-up compared to discharge (P < 0.01). No major adverse events noted. Conclusion: Physiotherapist-led in-patient treatment results in significant resting and functional pain outcomes in 12 days. Also, the improvements in neurological recovery and normalizing disc position are statistically significant in 90 days.

A transcriptome map of perennial ryegrass (Lolium perenne L.).

BACKGROUND: Single nucleotide polymorphisms (SNPs) are increasingly becoming the DNA marker system of choice due to their prevalence in the genome and their ability to be used in highly multiplexed genotyping assays. Although needed in high numbers for genome-wide marker profiles and genomics-assisted breeding, a surprisingly low number of validated SNPs are currently available for perennial ryegrass. RESULTS: A perennial ryegrass unigene set representing 9,399 genes was used as a reference for the assembly of 802,156 high quality reads generated by 454 transcriptome sequencing and for in silico SNP discovery. Out of more than 15,433 SNPs in 1,778 unigenes fulfilling highly stringent assembly and detection parameters, a total of 768 SNP markers were selected for GoldenGate genotyping in 184 individuals of the perennial ryegrass mapping population VrnA, a population being previously evaluated for important agronomic traits. A total of 592 (77%) of the SNPs tested were successfully called with a cluster separation above 0.9. Of these, 509 (86%) genic SNP markers segregated in the VrnA mapping population, out of which 495 were assigned to map positions. The genetic linkage map presented here comprises a total of 838 DNA markers (767 gene-derived markers) and spans 750 centi Mogan (cM) with an average marker interval distance of less than 0.9 cM. Moreover, it locates 732 expressed genes involved in a broad range of molecular functions of different biological processes in the perennial ryegrass genome. CONCLUSIONS: Here, we present an efficient approach of using next generation sequencing (NGS) data for SNP discovery, and the successful design of a 768-plex Illumina GoldenGate genotyping assay in a complex genome. The ryegrass SNPs along with the corresponding transcribed sequences represent a milestone in the establishment of genetic and genomics resources available for this species and constitute a further step towards molecular breeding strategies. Moreover, the high density genetic linkage map predominantly based on gene-associated DNA markers provides an important tool for the assignment of candidate genes to quantitative trait loci (QTL), functional genomics and the integration of genetic and physical maps in perennial ryegrass, one of the most important temperate grassland species.