Massey Research Online - Browsing by Author "Li Y"

Browsing by Author "Li Y"

Now showing 1 - 13 of 13

A BIM and AR-based indoor navigation system for pedestrians on smartphones
(Elsevier Inc. on behalf of the Korean Society of Civil Engineers, 2025-01) Zhang W; Li Y; Li P; Feng Z
Indoor navigation technology, as an emerging location information service, has shown continuous growth in its application demand in recent years. In indoor navigation, indoor localization and path planning are the key factors affecting navigation quality. Most of the existing methods rely on traditional methods for indoor localization with high implementation costs. As for path planning, most methods lack the acquisition and use of semantic information, affecting navigation's practicality and intuitiveness. To alleviate the above problems, we propose a building information modeling (BIM) and augmented reality (AR)-based indoor navigation system for pedestrians that can be implemented on smartphones. Specifically, we first map a three-dimensional model space subdivided by a triangular prism to the two-dimensional plane in order to construct an indoor navigation network. Secondly, the information is analyzed using inertial navigation system technology to identify indoor positions. Then, we propose an indoor augmented reality navigation algorithm based on architectural and spatial information (IARA) algorithm for indoor path planning. Finally, we integrated the above technologies and built an indoor pedestrian navigation system based on BIM and AR technologies. Experiments in specific scenarios show that our system ensures navigation stability while obtaining results that are more relevant to the needs of pedestrians.
Anchoring Mechanism for Capsule Endoscope: Mechanical Design, Fabrication and Experimental Evaluation.
(MDPI (Basel, Switzerland), 2022-11-22) Rehan M; Yeo AG; Yousuf MU; Avci E; Li Y
Capsule endoscopes are widely used to diagnose gut-related problems, but they are passive in nature and cannot actively move inside the gut. This paper details the design process and development of an anchoring mechanism and actuation system to hold a capsule in place within the small intestine. The design centres around the mechanical structure of the anchor that makes use of compliant Sarrus linkage legs, which extend to make contact with the intestine, holding the capsule in place. Three variants with 2 legs, 3 legs and 4 legs of the anchoring mechanism were tested using a shape memory alloy spring actuator (5 mm × ϕ 3.4 mm). The experiments determine that all the variants can anchor at the target site and resist peristaltic forces of 346 mN. The proposed design is well suited for an intestine with a diameter of 19 mm. The proposed design allows the capsule endoscopes to anchor at the target site for a better and more thorough examination of the targeted region. The proposed anchoring mechanism has the potential to become a vital apparatus for clinicians to use with capsule endoscopes in the future.
Assessing the genetic variation of tolerance to red needle cast in a Pinus radiata breeding population
(Springer-Verlag GmbH Germany, part of Springer Nature, 2018-06-27) Graham NJ; Suontama M; Pleasants T; Li Y; Bader MKF; Klápště J; Dungey HS; Williams NM
Breeding for disease resistance or tolerance is a viable option for disease management programmes and is important for the continued success and resilience of planted forests. Red needle cast (RNC) is a disease that affects radiata pine (Pinus radiata) and is caused by Phytophthora pluvialis. Knowledge is still very limited regarding the potential for genetic tolerance to this pathogen. The application of controlled screening techniques is clearly required. Using a detached needle assay, we screened 392 clonally replicated individuals (clones) from an elite P. radiata population for quantitative tolerance to RNC. Data was highly skewed and required logarithmic data transformation and Poisson distributions for the estimation of best linear unbiased predictions. These estimates revealed a broad range in susceptibility/tolerance to RNC, and enabled the identification of clones that were clearly susceptible and clones that were clearly tolerant. There was a high correlation between the number and length of lesions that developed in response to inoculation with P. pluvialis. Broad-sense heritability estimates were low to moderate, indicating that there is potential for improving tolerance through breeding. These results provide evidence that breeding for tolerance to P. pluvialis is possible, although continued work into understanding and minimising causes for variance are required.
Comparative study on the rheological properties of myofibrillar proteins from different kinds of meat
(Elsevier Ltd, 2022-01) Wang H; Yang Z; Yang H; Xue J; Li Y; Wang S; Ge L; Shen Q; Zhang M
In this study, the gel properties of myofibrillar proteins (MPs) from four meat sources (fish, beef, sheep, and pork) were compared. Oscillatory rheology measurements including temperature sweep, frequency sweep, and strain sweep were conducted to characterise the small and large deformation rheological properties of the MPs. In addition, sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE) and scanning electron microscopy (SEM) were used to evaluate differences in the molecular weight distribution as well as the microstructures in gel among different MPs. Frequency sweep measurements showed that all MP gels were weak gels. MPs extracted from pork exhibited the highest gel strength and most compact gel structure, whereas those from fish exhibited the lowest gel strength and loosest gel structure. In addition, the MP extracted from pork (PSM) had the highest content of myosin heavy chain (MHC) and actin. In conclusion, the MPs extracted from fish source and mammalian sources varied significantly in terms of rheological properties and microstructural characteristics. These results provided useful information for developing mixed gel products with different gel strengths.
Comparison of algorithms for road surface temperature prediction
(Emerald Publishing Limited, 2018-12-13) Liu B; Shen L; You H; Dong Y; Li J; Li Y
Purpose: The influence of road surface temperature (RST) on vehicles is becoming more and more obvious. Accurate predication of RST is distinctly meaningful. At present, however, the prediction accuracy of RST is not satisfied with physical methods or statistical learning methods. To find an effective prediction method, this paper selects five representative algorithms to predict the road surface temperature separately. Design/methodology/approach: Multiple linear regressions, least absolute shrinkage and selection operator, random forest and gradient boosting regression tree (GBRT) and neural network are chosen to be representative predictors. Findings: The experimental results show that for temperature data set of this experiment, the prediction effect of GBRT in the ensemble algorithm is the best compared with the other four algorithms. Originality/value: This paper compares different kinds of machine learning algorithms, observes the road surface temperature data from different angles, and finds the most suitable prediction method.
Consequences of Cadmium exposure on growth and reproduction across three generations of earthworm
(Conference organisers, 29/06/2018) Dharmadasa P; Kim N; Li Y; Thunders M
Heavy metal pollution disturbs the soil ecosystem by negatively affecting soil fauna and flora. In term of biomass and activity Annelids are a very important part of the soil invertebrate community. They are one of the first organisms affected by heavy metal contamination in soil and as such are good model organisms for assessing soil contamination. The aim of this research is to observe how Cd impacts on health and reproduction in three consecutive generations of E. fetida. [...]
De novo transcriptome assembly, functional annotation and differential gene expression analysis of juvenile and adult E. fetida, a model oligochaete used in ecotoxicological studies
(Sociedad de Biología de Chile, 17/02/2017) Thunders MC; Cavanagh J; Li Y
BACKGROUND: Earthworms are sensitive to toxic chemicals present in the soil and so are useful indicator organisms for soil health. Eisenia fetida are commonly used in ecotoxicological studies; therefore the assembly of a baseline transcriptome is important for subsequent analyses exploring the impact of toxin exposure on genome wide gene expression. RESULTS: This paper reports on the de novo transcriptome assembly of E. fetida using Trinity, a freely available software tool. Trinotate was used to carry out functional annotation of the Trinity generated transcriptome file and the transdecoder generated peptide sequence file along with BLASTX, BLASTP and HMMER searches and were loaded into a Sqlite3 database. To identify differentially expressed transcripts; each of the original sequence files were aligned to the de novo assembled transcriptome using Bowtie and then RSEM was used to estimate expression values based on the alignment. EdgeR was used to calculate differential expression between the two conditions, with an FDR corrected P value cut off of 0.001, this returned six significantly differentially expressed genes. Initial BLASTX hits of these putative genes included hits with annelid ferritin and lysozyme proteins, as well as fungal NADH cytochrome b5 reductase and senescence associated proteins. At a cut off of P = 0.01 there were a further 26 differentially expressed genes. CONCLUSION: These data have been made publicly available, and to our knowledge represent the most comprehensive available transcriptome for E. fetida assembled from RNA sequencing data. This provides important groundwork for subsequent ecotoxicogenomic studies exploring the impact of the environment on global gene expression in E. fetida and other earthworm species.
Decanoyl-Arg-Val-Lys-Arg-Chloromethylketone: An Antiviral Compound That Acts against Flaviviruses through the Inhibition of Furin-Mediated prM Cleavage
(MDPI (Basel, Switzerland), 2019-11) Imran M; Saleemi MK; Chen Z; Wang X; Zhou D; Li Y; Zhao Z; Zheng B; Li Q; Cao S; Ye J
Flaviviruses, such as Zika virus (ZIKV), Japanese encephalitis virus (JEV), Dengue virus (DENV), and West Nile virus (WNV), are important arthropod-borne pathogens that present an immense global health problem. Their unpredictable disease severity, unusual clinical features, and severe neurological manifestations underscore an urgent need for antiviral interventions. Furin, a host proprotein convertase, is a key contender in processing flavivirus prM protein to M protein, turning the inert virus to an infectious particle. For this reason, the current study was planned to evaluate the antiviral activity of decanoyl-Arg-Val-Lys-Arg-chloromethylketone, a specific furin inhibitor, against flaviviruses, including ZIKV and JEV. Analysis of viral proteins revealed a significant increase in the prM/E index of ZIKV or JEV in dec-RVKR-cmk-treated Vero cells compared to DMSO-treated control cells, indicating dec-RVKR-cmk inhibits prM cleavage. Plaque assay, qRT-PCR, and immunofluorescence assay revealed a strong antiviral activity of dec-RVKR-cmk against ZIKV and JEV in terms of the reduction in virus progeny titer and in viral RNA and protein production in both mammalian cells and mosquito cells. Time-of-drug addition assay revealed that the maximum reduction of virus titer was observed in post-infection treatment. Furthermore, our results showed that dec-RVKR-cmk exerts its inhibitory action on the virus release and next round infectivity but not on viral RNA replication. Taken together, our study highlights an interesting antiviral activity of dec-RVKR-cmk against flaviviruses.
Estimates of genomic inbreeding and identification of candidate regions that differ between Chinese indigenous sheep breeds.
(BioMed Central Ltd, 2021-08-05) Liu J; Shi L; Li Y; Chen L; Garrick D; Wang L; Zhao F
BACKGROUND: A run of homozygosity (ROH) is a consecutive tract of homozygous genotypes in an individual that indicates it has inherited the same ancestral haplotype from both parents. Genomic inbreeding can be quantified based on ROH. Genomic regions enriched with ROH may be indicative of selection sweeps and are known as ROH islands. We carried out ROH analyses in five Chinese indigenous sheep breeds; Altay sheep (n = 50 individuals), Large-tailed Han sheep (n = 50), Hulun Buir sheep (n = 150), Short-tailed grassland sheep (n = 150), and Tibetan sheep (n = 50), using genotypes from an Ovine Infinium HD SNP BeadChip. RESULTS: A total of 18,288 ROH were identified. The average number of ROH per individual across the five sheep breeds ranged from 39 (Hulun Buir sheep) to 78 (Large-tailed Han sheep) and the average length of ROH ranged from 0.929 Mb (Hulun Buir sheep) to 2.544 Mb (Large-tailed Han sheep). The effective population size (Ne) of Altay sheep, Large-tailed Han sheep, Hulun Buir sheep, Short-tailed grassland sheep and Tibetan sheep were estimated to be 81, 78, 253, 238 and 70 five generations ago. The highest ROH-based inbreeding estimate (FROH) was 0.0808 in Large-tailed Han sheep, whereas the lowest FROH was 0.0148 in Hulun Buir sheep. Furthermore, the highest proportion of long ROH fragments (> 5 Mb) was observed in the Large-tailed Han sheep breed which indicated recent inbreeding. In total, 49 ROH islands (the top 0.1% of the SNPs most commonly observed in ROH) were identified in the five sheep breeds. Three ROH islands were common to all the five sheep breeds, and were located on OAR2: 12.2-12.3 Mb, OAR12: 78.4-79.1 Mb and OAR13: 53.0-53.6 Mb. Three breed-specific ROH islands were observed in Altay sheep (OAR15: 3.4-3.8 Mb), Large-tailed Han sheep (ORA17: 53.5-53.8 Mb) and Tibetan sheep (ORA5:19.8-20.2 Mb). Collectively, the ROH islands harbored 78 unique genes, including 19 genes that have been documented as having associations with tail types, adaptation, growth, body size, reproduction or immune response. CONCLUSION: Different ROH patterns were observed in five Chinese indigenous sheep breeds, which reflected their different population histories. Large-tailed Han sheep had the highest genomic inbreeding coefficients and the highest proportion of long ROH fragments indicating recent inbreeding. Candidate genes in ROH islands could be used to illustrate the genetic characteristics of these five sheep breeds. Our findings contribute to the understanding of genetic diversity and population demography, and help design and implement breeding and conservation strategies for Chinese sheep.
Functional Food Based on Potato
(MDPI (Basel, Switzerland), 2023-05-26) Xu J; Li Y; Kaur L; Singh J; Zeng F; Krastanov AI
Potato (Solanum tuberosum L.) has gradually become a stable food worldwide since it can be a practical nutritional supplement and antioxidant as well as an energy provider for human beings. Financially and nutritionally, the cultivation and utility of potatoes is worthy of attention from the world. Exploring the functionality and maximizing the utilization of its component parts as well as developing new products based on the potato is still an ongoing issue. To maximize the benefits of potato and induce new high-value products while avoiding unfavorable properties of the crop has been a growing trend in food and medical areas. This review intends to summarize the factors that influence changes in the key functional components of potatoes and to discuss the focus of referenced literature which may require further research efforts. Next, it summarizes the application of the latest commercial products and potential value of components existing in potato. In particular, there are several main tasks for future potato research: preparing starchy foods for special groups of people and developing fiber-rich products to supply dietary fiber intake, manufacturing bio-friendly and specific design films/coatings in the packaging industry, extracting bioactive proteins and potato protease inhibitors with high biological activity, and continuing to build and examine the health benefits of new commercial products based on potato protein. Notably, preservation methods play a key role in the phytochemical content left in foods, and potato performs superiorly to many common vegetables when meeting the demands of daily mineral intake and alleviating mineral deficiencies.
Pesticide exposure in New Zealand school-aged children: Urinary concentrations of biomarkers and assessment of determinants
(Elsevier Ltd, 2022-05) Li Y; Wang X; Feary McKenzie J; 't Mannetje A; Cheng S; He C; Leathem J; Pearce N; Sunyer J; Eskenazi B; Yeh R; Aylward LL; Donovan G; Mueller JF; Douwes J
This study aimed to assess pesticide exposure and its determinants in children aged 5-14 years. Urine samples (n = 953) were collected from 501 participating children living in urban areas (participant n = 300), rural areas but not on a farm (n = 76), and living on a farm (n = 125). The majority provided two samples, one in the high and one in the low spraying season. Information on diet, lifestyle, and demographic factors was collected by questionnaire. Urine was analysed for 20 pesticide biomarkers by GC-MS/MS and LC-MS/MS. Nine analytes were detected in > 80% of samples, including six organophosphate insecticide metabolites (DMP, DMTP, DEP, DETP, TCPy, PNP), two pyrethroid insecticide metabolites (3-PBA, trans-DCCA), and one herbicide (2,4-D). The highest concentration was measured for TCPy (median 13 μg/g creatinine), a metabolite of chlorpyrifos and triclopyr, followed by DMP (11 μg/g) and DMTP (3.7 μg/g). Urine metabolite levels were generally similar or low compared to those reported for other countries, while relatively high for TCPy and pyrethroid metabolites. Living on a farm was associated with higher TCPy levels during the high spray season. Living in rural areas, dog ownership and in-home pest control were associated with higher levels of pyrethroid metabolites. Urinary concentrations of several pesticide metabolites were higher during the low spraying season, possibly due to consumption of imported fruits and vegetables. Organic fruit consumption was not associated with lower urine concentrations, but consumption of organic food other than fruit or vegetables was associated with lower concentrations of TCPy in the high spray season. In conclusion, compared to other countries such as the U.S., New Zealand children had relatively high exposures to chlorpyrifos/triclopyr and pyrethroids. Factors associated with exposure included age, season, area of residence, diet, in-home pest control, and pets.
Repeated Interval Loughborough Soccer Passing Tests: An Ecologically Valid Motor Task to Induce Mental Fatigue in Soccer
(Frontiers Media S A, 2022-01-20) Bian C; Ali A; Nassis GP; Li Y; Trecroci A
Most studies investigating mental fatigue (MF) in soccer utilized a computerized Stroop task to induce MF. However, the traditional key-pressing task has been challenged for its lack of ecological validity. The limited relevance to real-life soccer made it difficult to bridge the gap between the research and the applied setting. Therefore, a novel soccer-specific inducing task is in urgent need. This study compared a novel MF-inducing task in soccer with the Stroop task and investigated the impact of induced MF on cognitive and soccer-specific skill performance. A randomized, counterbalanced crossover design was employed. Fifteen well-trained male soccer players randomly participated in three MF-inducing tasks. Two of them were motor tasks consisting of 10 repeated interval Loughborough Soccer Passing Test (10xLSPT or LSPT) in clockwise passing order (10xC-LSPT) with each block starting every 2 min. The two tasks share the same movement pattern, but C-LSPT is considered to have lower cognitive demands. The third was the 20-min Stroop task (Stroop-20). MF was assessed immediately before and after each task by visual analog scale (VAS), the cognitive performance in a 3-min Stroop task, and the skill performance in one LSPT. Subjective MF increased similarly after 10xLSPT and Stroop-20 (+ 25.4 ± 10.3 vs. + 23.4 ± 10.8 AU, p = 0.607). The induced MF by 10xLSPT and Stroop-20 had no impact on cognitive performance and movement time but similarly affected in a significantly negative manner on penalty time (+ 5.9 ± 4.9 vs. + 5.4 ± 4.2 s, p = 0.748) and passing accuracy (-1.4 ± 1.5 vs. -1.0 ± 1.3, p = 0.465). Two motor tasks shared similar intensity, but 10xC-LSPT was inefficient to induce MF. The results showed that the 20-min repeated interval LSPT could induce a similar MF as the Stroop task. The induced MF had detrimental effects on soccer skill performance. The novel motor task is recommended for MF studies in soccer as an inducement task. Practitioners should be cautious about the prolonged cognitive-demanding skill section of the pre-match warm-up to avoid the negative effect of MF on the upcoming match. This motor task pattern could be followed as a supplementary training protocol.
Transcriptomic Identification of a Unique Set of Nodule-Specific Cysteine-Rich Peptides Expressed in the Nitrogen-Fixing Root Nodule of Astragalus sinicus
(The American Phytopathological Society in cooperation with the International Society for Molecular Plant-Microbe Interactions, 2022-10-08) Wei F; Liu Y; Zhou D; Zhao W; Chen Z; Chen D; Li Y; Zhang X-X
Legumes in the inverted repeat-lacking clade (IRLC) each produce a unique set of nodule-specific cysteine-rich (NCR) peptides, which act in concert to determine the terminal differentiation of nitrogen-fixing bacteroid. IRLC legumes differ greatly in their numbers of NCR and sequence diversity. This raises the significant question how bacteroid differentiation is collectively controlled by the specific NCR repertoire of an IRLC legume. Astragalus sinicus is an IRLC legume that forms indeterminate nodules with its microsymbiont Mesorhizobium huakuii 7653R. Here, we performed transcriptome analysis of root and nodule samples at 3, 7, 14, 28 days postinoculation with M. huakuii 7653R and its isogenic ∆bacA mutant. BacA is a broad-specificity peptide transporter required for the host-derived NCRs to target rhizobial cells. A total of 167 NCRs were identified in the RNA transcripts. Comparative sequence and electrochemical analysis revealed that A. sinicus NCRs (AsNCRs) are dominated by a unique cationic group (termed subgroup C), whose mature portion is relatively long (>60 amino acids) and phylogenetically distinct and possessing six highly conserved cysteine residues. Subsequent functional characterization showed that a 7653R variant harboring AsNCR083 (a representative of subgroup C AsNCR) displayed significant growth inhibition in laboratory media and formed ineffective white nodules on A. sinicus with irregular symbiosomes. Finally, bacterial two-hybrid analysis led to the identification of GroEL1 and GroEL3 as the molecular targets of AsNCR067 and AsNCR076. Together, our data contribute to a systematic understanding of the NCR repertoire associated with the A. sinicus and M. huakuii symbiosis.

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