Novel ratio-expressions of genes enables estimation of wound age in contused skeletal muscle.

Given that combination with multiple biomarkers may well raise the predictive value of wound age, it appears critically essential to identify new features under the limited cost. For this purpose, the present study explored whether the gene expression ratios provide unique time information as an additional indicator for wound age estimation not requiring the detection of new biomarkers and allowing full use of the available data. The expression levels of four wound-healing genes (Arid5a, Ier3, Stom, and Lcp1) were detected by real-time polymerase chain reaction, and a total of six expression ratios were calculated among these four genes. The results showed that the expression levels of four genes and six ratios of expression changed time-dependent during wound repair. The six expression ratios provided additional temporal information, distinct from the four genes analyzed separately by principal component analysis. The overall performance metrics for cross-validation and external validation of four typical prediction models were improved when six ratios of expression were added as additional input variables. Overall, expression ratios among genes provide temporal information and have excellent potential as predictive markers for wound age estimation. Combining the expression levels of genes with ratio-expression of genes may allow for more accurate estimates of the time of injury.

Exploring postmortem succession of rat intestinal microbiome for PMI based on machine learning algorithms and potential use for humans.

The microbial communities may undergo a meaningful successional change during the progress of decay and decomposition that could aid in determining the post-mortem interval (PMI). However, there are still challenges to applying microbiome-based evidence in law enforcement practice. In this study, we attempted to investigate the principles governing microbial community succession during decomposition of rat and human corpse, and explore their potential use for PMI of human cadavers. A controlled experiment was conducted to characterize temporal changes in microbial communities associated with rat corpses as they decomposed for 30 days. Obvious differences of microbial community structures were observed among different stages of decomposition, especially between decomposition of 0-7d and 9-30d. Thus, a two-layer model for PMI prediction was developed based on the succession of bacteria by combining classification and regression models using machine learning algorithms. Our results achieved 90.48% accuracy for discriminating groups of PMI 0-7d and 9-30d, and yielded a mean absolute error of 0.580d within 7d decomposition and 3.165d within 9-30d decomposition. Furthermore, samples from human cadavers were collected to gain the common succession of microbial community between rats and humans. Based on the 44 shared genera of rats and humans, a two-layer model of PMI was rebuilt to be applied for PMI prediction of human cadavers. Accurate estimates indicated a reproducible succession of gut microbes across rats and humans. Together these results suggest that microbial succession was predictable and can be developed into a forensic tool for estimating PMI.

A novel method for determining postmortem interval based on the metabolomics of multiple organs combined with ensemble learning techniques.

Determining postmortem interval (PMI) is one of the most challenging and essential endeavors in forensic science. Developments in PMI estimation can take advantage of machine learning techniques. Currently, applying an algorithm to obtain information on multiple organs and conducting joint analysis to accurately estimate PMI are still in the early stages. This study aimed to establish a multi-organ stacking model that estimates PMI by analyzing differential compounds of four organs in rats. In a total of 140 rats, skeletal muscle, liver, lung, and kidney tissue samples were collected at each time point after death. Ultra-performance liquid chromatography coupled with high-resolution mass spectrometry was used to determine the compound profiles of the samples. The original data were preprocessed using multivariate statistical analysis to determine discriminant compounds. In addition, three interrelated and increasingly complex patterns (single organ optimal model, single organ stacking model, multi-organ stacking model) were established to estimate PMI. The accuracy and generalized area under the receiver operating characteristic curve of the multi-organ stacking model were the highest at 93% and 0.96, respectively. Only 1 of the 14 external validation samples was misclassified by the multi-organ stacking model. The results demonstrate that the application of the multi-organ combination to the stacking algorithm is a potential forensic tool for the accurate estimation of PMI.

A new species of the genus Psilota Meigen, 1822 (Diptera: Syrphidae) from China.

The genus Psilota Meigen, 1822 is recorded for the first time from China, and the species Psilota bashanensis Huo and Zhao sp. nov. is described and illustrated based on the adult male. The complete cytochrome c oxidase subunit I (COI) gene of this new species has been successfully obtained and compared to that of other congeneric species. An updated key to adult males of the genus Psilota from the Palaearctic Region is also provided.

Studies on the genus Psephenothrips Reyes from China (Thysanoptera, Phlaeothripinae), with one new species.

Species from China of the Asian genus Psephenothrips are reviewed, with P. eriobotryae sp. nov. collected from the leaves of Eriobotrya japonica in Sichuan Province. A key to the five species known from China is provided and the COI sequence of the new species is also given.

Insight into molecular profile changes after skeletal muscle contusion using microarray and bioinformatics analyses.

Muscle trauma frequently occurs in daily life. However, the molecular mechanisms of muscle healing, which partly depend on the extent of the damage, are not well understood. The present study aimed to investigate gene expression profiles following mild and severe muscle contusion, and to provide more information about the molecular mechanisms underlying the repair process. A total of 33 rats were divided randomly into control (n=3), mild contusion (n=15), and severe contusion (n=15) groups; the contusion groups were further divided into five subgroups (1, 3, 24, 48, and 168 h post-injury; n=3 per subgroup). A total of 2844 and 2298 differentially expressed genes (DEGs) were identified using microarray analyses in the mild and severe contusions, respectively. From the analysis of the 1620 coexpressed genes in mildly and severely contused muscle, we discovered that the gene profiles in functional modules and temporal clusters were similar between the mild and severe contusion groups; moreover, the genes showed time-dependent patterns of expression, which allowed us to identify useful markers of wound age. The functional analyses of genes in the functional modules and temporal clusters were performed, and the hub genes in each module-cluster pair were identified. Interestingly, we found that genes down-regulated at 24-48 h were largely associated with metabolic processes, especially of the oxidative phosphorylation (OXPHOS), which has been rarely reported. These results improve our understanding of the molecular mechanisms underlying muscle repair, and provide a basis for further studies of wound age estimation.

Identifying biomarkers for evaluating wound extent and age in the contused muscle of rats using microarray analysis: a pilot study.

Wound age estimation is still one of the most important and significant challenges in forensic practice. The extent of wound damage greatly affects the accuracy and reliability of wound age estimation, so it is important to find effective biomarkers to help diagnose wound degree and wound age. In the present study, the gene expression profiles of both mild and severe injuries in 33 rats were assayed at 0, 1, 3, 24, 48, and 168 hours using the Affymetrix microarray system to provide biomarkers for the evaluation of wound age and the extent of the wound. After obtaining thousands of differentially expressed genes, a principal component analysis, the least absolute shrinkage and selection operator, and a time-series analysis were used to select the most predictive prognostic genes. Finally, 15 genes were screened for evaluating the extent of wound damage, and the top 60 genes were also screened for wound age estimation in mild and severe injury. Selected indicators showed good diagnostic performance for identifying the extent of the wound and wound age in a Fisher discriminant analysis. A function analysis showed that the candidate genes were mainly related to cell proliferation and the inflammatory response, primarily IL-17 and the Hematopoietic cell lineage signalling pathway. The results revealed that these genes play an essential role in wound-healing and yield helpful and valuable potential biomarkers for further targeted studies.

Studies on the genus Mesandrothrips from China, with a new species (Thysanoptera: Phlaeothripinae: Haplothripini).

In the recently re-instated genus Mesandrothrips Priesner, four species are recognized from China, and an illustrated key is provided here. This includes one new species, M. acutisetis sp.n., together with the first record of M. subterraneus from China.

Novel insights into wound age estimation: combined with "up, no change, or down" system and cosine similarity in python environment.

Wound age estimation is a complex, multifactorial issue. It is considered to have great practical significance that combining multi-biomarkers and multi-methods for injury time estimation. We optimized our earlier "up, no change, or down" model by adding data on the expression levels of mRNAs encoding ABHD2, MAD2L2, and ARID5A, and we converted the relative quantitative expression levels of seven genes into a vector rather than a color model. We used Python to derive the cosine similarity (CS) between a test set and the vector matrix; the highest similarity most accurately reflected the injury time. For the optimized model, the internal and external verifications were approximately 0.71 and 0.66, respectively. The good double-blinded results indicated that the model was stable and reliable. In summary, we used a vector matrix and cosine similarities derived by Python to mine the levels of genes expressed in contused skeletal muscle. We are the first to combine several biomarkers and methods for wound age estimation.

Temporal expression of wound healing-related genes inform wound age estimation in rats after a skeletal muscle contusion: a multivariate statistical model analysis.

Although many time-dependent parameters involved in wound healing have been exhaustively investigated, establishing an objective and reliable means for estimating wound age remains a challenge. In this study, 78 Sprague-Dawley rats were divided randomly into a control group and contusion groups at 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44, and 48 h post-injury (n = 6 per group). The expression of 35 wound healing-related genes was explored in contused skeletal muscle by real-time polymerase chain reaction. Differences between the groups were assessed by partial least squares discriminant analysis (PLS-DA). The results show that the samples were classified into three groups by wound age (4-12, 16-24, and 28-48 h). A Fisher discriminant analysis model of 14 selected genes was constructed, and 94.9% cross-validated grouped cases were correctly classified. A PLS regression analysis using 14 genes showed reasonable internal predictive validity, with a root mean squared error of cross-validation of approximately 8 h. To examine whether the prediction models were capable of analyzing new (ungrouped) cases, an external validation was carried out using the expression data from an additional 30 rats. Approximately 76.7% of ungrouped cases were correctly classified, which was a lower proportion than that for cross-validation. Similarly, the prediction results of the PLS model showed lower relatively external predictive validity (root mean squared error of prediction = 11 h) than internal predictive validity. Although the prediction results were less accurate than expected, the gene expression modeling and multivariate analyses showed great potential for estimating injury time. These multivariate methods may be valuable when devising future wound time estimation strategies.

Review of Podothrips from China (Thysanoptera, Phlaeothripidae), with one new species and three new records.

Podothrips species occur on the leaves of various Poaceae, including bamboo and grasses. An illustrated identification key is given here to the six Podothrips species recorded from China. These include P. femoralis Dang & Qiao, sp. nov., and P. sasacola Kurosawa, P. odonaspicola (Kurosawa), and P. semiflavus Hood that are newly recorded from China.

Species of the Poaceae-associated genus Bamboosiella (Thysanoptera, Phlaeothripidae) from China, with three new species.

In the Poaceae-associated genus Bamboosiella Ananthakrishnan, eleven species are here recognized from China, including antennatus sp.n. and longisetis sp.n. from Yunnan, and magnus sp.n. from Hainan. Four species are newly recorded from China, bicoloripes Ananthakrishnan, fasciata Okajima, flavescens Okajima and semiflava Okajima. One species from Zhejiang, Bamboosiella brevibristla Sha, Guo, Feng & Duan is placed as a new synonym of B. exastis (Ananthakrishnan & Kudo). An illustrated identification key is provided to the eleven Bamboosiella species now recognised from China.

Studies on idiocerine leafhoppers with descriptions of Chinaocerus gen. nov. and three new species from China (Hemiptera: Cicadomorpha: Cicadellidae).

A new leafhopper genus of the tribe Idiocerini (Hemiptera: Cicadomorpha: Cicadellidae), Chinaocerus, is described from the southwest China together with three new species, C. kangdingensis Zhang & Li sp. nov. (Sichuan Province), C. bispinatus Zhang & Li sp. nov. (Yunnan Province) and C. shii Zhang & Li sp. nov. (Sichuan Province). Descriptions and illustrations of these three new species are provided, and a key for their separation is also given.

Conspectus of the Phlaeothripinae genera from China and Southeast Asia (Thysanoptera, Phlaeothripidae).

An illustrated identification key is provided to 100 genera of Phlaeothripinae from China and Southeast Asia, together with a diagnosis for each genus, and comments on the species diversity. One new genus with a new species, Akarethrips iotus gen.n. & sp.n., and two new species, Heliothripoides boltoni sp.n. and Terthrothrips strasseni sp.n., are described from specimens collected in Peninsular Malaysia and Java respectively. Three Phlaeothripinae genera are synonymised, Mychiothrips Haga & Okajima syn.n. of Veerabahuthrips Ramakrishna, Syringothrips Priesner syn.n. of GigantothripsZimmermann, and Sauridothrips Priesner syn.n. of Gynaikothrips Zimmermann. In addition, four nomenclatural changes are included, Adelphothrips ignotus (Reyes) comb.n. transferred from Mesothrips, Karnyothrips palmerae (Chen) comb.n from Xylaplothrips, Xylaplothrips bogoriensis (Karny) comb.n from Brachythrips, and Oidanothrips notabilisFeng, Guo & Duan considered as a new synonym of Oidanothrips frontalis (Bagnall).

Review of the spore-feeding Idolothripinae from China (Thysanoptera, Phlaeothripidae).

An illustrated key is provided to the 19 genera of the subfamily Idolothripinae from China, and a checklist given to 62 named species, of which six species are newly recorded from China, together with the genus Bolothrips that is represented by two un-named species. A generic diagnosis is given for each genus, along with some discussion of systematic relationship problems and species diversity. Identification keys to species of 11 genera are provided, and Megathrips antennatus Guo, Feng & Duan is considered as a new synonymof Megathrips lativentris (Heeger).

Genera of fungivorous Phlaeothripinae (Thysanoptera) from dead branches and leaf-litter in Australia.

An illustrated key is provided for the identification of 39 genera of Thysanoptera--Phlaeothripinae with species that live in association with dead branches and leaf-litter in Australia and are considered to be fungus-feeding. Seven of these genera are not previously recorded from this continent, including un-named species of Deplorothrips, Malacothrips, Mystrothrips, Preeriella and Tylothrips, together with Azaleothrips lepidus Okajima and Terthrothrips ananthakrishnani Kudo. A brief generic diagnosis is provided for each genus, together with comments on systematic problems and numbers of species.

Leaf-litter thrips of the genus Adraneothrips from Asia and Australia (Thysanoptera, Phlaeothripinae).

The Oriental genus Stigmothrips Ananthakrishnan is synonymised with A draneothrips Hood, a genus in which most species have been described from the Neotropics. Problems with descriptions by T.N. Ananthakrishnan of species from India are discussed, but cannot be fully resolved without access to the holotypes. A key is provided to 23 species of Adraneothrips from Asia and Australia, including four new species: darwini sp. n. from Northern Territory, Australia; hani sp. n. from Taiwan, China; yunnanensis sp. n. from Yunnan, China as well as Java, Indonesia; and waui sp. n. from Papua New Guinea. One species from the Philippines, Adraneothrips makilingensis (Reyes) comb. n., is transferred from Apelaunothrips, and the male of Adraneothrips russatus (Haga) is described and illustrated for the first time, from Yunnan, China. Two species are newly recorded from Australia: coloratus (Mound) previously known only from the Solomon Islands, and russatus (Haga) previously known from southern Japan and southern China but with one female recorded here from Fiji. Further new records are, coloratus from Java, and chinensis (Zhang & Tong) from Malaysia. Colonies of species in this genus are commonly found living on dead leaves, as fungus-feeders, and many species are brightly coloured or bicoloured in patterns of yellow and brown.

The genus Meiothrips Priesner (Thysanoptera, Phlaeothripidae, Idolothripinae) with a key and a new species from China.

The genus Meiothrips Priesneris reviewed, with Meiothrips fuscicrussp. n., and Meiothrips nepalensis Kudo & Ananthakrishnan recorded and described from China, and a key provided to the five known species. COI sequences of the new species and Meiothrips nepalensis are also provided.