Homologue Patterns Research Articles

Allelic Variation in gtfB–gtfC Region of Natural Variant of Streptococcus mutans Without Biofilm Formation

Streptococcus mutans is primarily found in biofilms on tooth surfaces and is associated with the development of dental caries. S. mutans synthesizes water-insoluble glucan (WIG) using sucrose as a substrate, inducing the formation of three-dimensional biofilms. WIG is produced by glucosyltransferases (GTFs) encoded by the tandem and highly homologous gtfB and gtfC genes. Conversely, the homologous recombination of gtfB and gtfC readily happens, producing natural variants without WIG. These WIG− variants are thought to have ecologically pleiotropic functions; however, the molecular basis for their appearance is unclear. This study aimed to determine the sequence of the gtfB–gtfC regions of WIG− variants. We sequenced the gtfB–gtfC regions of 23 WIG− variants derived from S. mutans UA159 and revealed the presence of five alleles and four types of single homologous recombination patterns. Regardless of the allele type, the WIG− variants showed low biofilm formation and GTF activity. To the best of our knowledge, this is the first study to report the presence of alleles in WIG− variants. These findings provide important information for explaining the appearance of mechanisms in WIG− variants.

Comparison of extracellular Giant depolarizing potentials in vitro and early sharp waves in vivo in the CA1 hippocampus of neonatal rats

Giant Depolarizing Potentials (GDPs) and Early Sharp Waves (eSPWs) are the major patterns of neuronal network activity in the developing hippocampus of neonatal rodents in vitro and in vivo, respectively. Because of certain similarities in their electrographic traits, GDPs and eSPWs were originally considered as homologous patterns. Here, we compared electrographic features and current density profiles of field GDPs (fGDPs) and eSPWs using extracellular multisite silicon probe recordings from neonatal rat CA1 hippocampus. We found that fGDPs in hippocampal slices were much less in amplitude than eSPWs, and were characterized by electronegativity and current sinks in CA1 pyramidal cell layer and stratum radiatum, and positive waves/sources in stratum lacunosum-moleculare. eSPWs in vivo showed a remarkably different depth profile, with positivity and current source in the CA1 pyramidal cell layer, and negativity/sinks in stratum radiatum and stratum lacunosum-moleculare. Current sinks of CA3-evoked responses corresponded to sinks of fGDPs and eSPWs in the stratum radiatum. However, current sinks of entorhinal inputs - evoked responses in stratum lacunosum-moleculare, which were characteristic of eSPWs, were absent in fGDPs. In addition, fGDPs more strongly modulated neuronal firing in CA1 compared to eSPWs. Thus, we show important differences in the electrographic properties of GDPs and eSPWs that challenge the homology of these two activity patterns.

E3 ligases RNF43 and ZNRF3 display differential specificity for endocytosis of Frizzled receptors.

The transmembrane E3 ligases RNF43 and ZNRF3 perform key tumour suppressor roles by inducing endocytosis of members of the Frizzled (FZD) family, the primary receptors for WNT. Loss-of-function mutations in RNF43 and ZNRF3 mediate FZD stabilisation and a WNT-hypersensitive growth state in various cancer types. Strikingly, RNF43 and ZNRF3 mutations are differentially distributed across cancer types, raising questions about their functional redundancy. Here, we compare the efficacy of RNF43 and ZNRF3 of targeting different FZDs for endocytosis. We find that RNF43 preferentially down-regulates FZD1/FZD5/FZD7, whereas ZNRF3 displays a preference towards FZD6. We show that the RNF43 transmembrane domain (TMD) is a key molecular determinant for inducing FZD5 endocytosis. Furthermore, a TMD swap between RNF43 and ZNRF3 re-directs their preference for FZD5 down-regulation. We conclude that RNF43 and ZNRF3 preferentially down-regulate specific FZDs, in part by a TMD-dependent mechanism. In accordance, tissue-specific expression patterns of FZD homologues correlate with the incidence of RNF43 or ZNRF3 cancer mutations in those tissues. Consequently, our data point to druggable vulnerabilities of specific FZD receptors in RNF43- or ZNRF3-mutant human cancers.

HSD8 Homologous Recombination Repair Testing Patterns and Barriers in Metastatic Hormone-Sensitive and Metastatic Castration-Resistant Prostate Cancer across Europe: A Real-World Survey

HSD8 Homologous Recombination Repair Testing Patterns and Barriers in Metastatic Hormone-Sensitive and Metastatic Castration-Resistant Prostate Cancer across Europe: A Real-World Survey

Gene expression supports a single origin of horns and antlers in hoofed mammals

Horns, antlers, and other bony cranial appendages of even-toed hoofed mammals (ruminant artiodactyls) challenge traditional morphological homology assessments. Cranial appendages all share a permanent bone portion with family-specific integument coverings, but homology determination depends on whether the integument covering is an essential component or a secondary elaboration of each structure. To enhance morphological homology assessments, we tested whether juvenile cattle horn bud transcriptomes share homologous gene expression patterns with deer antlers relative to pig outgroup tissues, treating the integument covering as a secondary elaboration. We uncovered differentially expressed genes that support horn and antler homology, potentially distinguish them from non-cranial-appendage bone and other tissues, and highlight the importance of phylogenetic outgroups in homology assessments. Furthermore, we found differentially expressed genes that could support a shared cranial neural crest origin for horns and antlers and expression patterns that refine our understanding of the timing of horn and antler differentiation.

Conserved expression of the zebrafish syt4 gene in GABAergic neurons in the cerebellum of adult fishes revealed by mammalian SYT4 immunoreactive-like signals

Synaptotagmin 4 (syt4) belongs to the synaptotagmin protein family, which has 17 and 28 family members in human and zebrafish, respectively. In zebrafish and rodents, syt4 is known to express abundantly in the entire central nervous system in the early developmental stages. In adult rodents, the gene expression shifts to be predominant in the cerebellum, mostly in Purkinje cells, a type of GABAergic neurons. However, there is no report of the expression pattern of syt4 in the adult zebrafish brain. Therefore, we hypothesize that the expression of syt4 is conserved in adult zebrafish and is specific to the GABAergic neurons, likely Purkinje cells, in the cerebellum. To examine the hypothesis, we first show that only one copy of syt4 gene remains in the zebrafish genome, and it is orthologous to the gene in other vertebrates. We further observe mammalian SYT4 antibody immunoreactive-like (mSYT4-ir) signals in several structures in the hindbrain including the medial divisions of the valvula cerebelli and the corpus cerebelli. In addition, our observations indicate the presence of mSYT4-ir signals in GABAergic neurons, most notably in the Purkinje cell layer of the molecular layer in the aforementioned structures. Conversely, mSYT4-ir signals are not observed in glutamatergic or cholinergic neurons. Therefore, we deduce that the syt4 gene in zebrafish exhibits a homologous expression pattern to those of previously studied vertebrate species, which is revealed by the positive immunoreactive-like signals of mammalian SYT4 antibodies.

Integrative analysis of homologous recombination repair patterns unveils prognostic signatures and immunotherapeutic insights in breast cancer

Globally, breast cancer (BC) is the leading cause of female death and morbidity. Homologous recombination repair (HRR) is critical in BC. However, the prognostic role and immunotherapy response of HRR in BC remains to be clarified. Firstly, we identified HRR types in BC samples from the Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) dataset (GSE42568) based on 65 HRR genes (HRRGs). A differentially expressed gene (DEG) list for different HRR types was generated. Then, the influences of gene sets composed of these DEGs on biological pathways and BC prognosis were explored. Next, we identified gene clusters based on gene sets composed of DEGs. Genes associated with prognosis for DEGs were identified using univariate Cox regression. Finally, the HRR score was constructed based on genes associated with prognosis. We analyzed how HRR score correlates with tumor mutation burden (TMB), immune cell infiltration (ICI), and immunotherapy response. Three HRR clusters were discovered. HRR subtype A demonstrated decreased infiltration and a high number of immunosuppressive cells with a poor prognosis. DEGs among various HRR types were predominantly enriched in cell cycle and genomic stability-related pathways. The prognostic model based on sixteen DEGs accurately predicted BC prognosis. The HRRGs were differentially expressed in three DEG clusters. TMB, ICI, and immunotherapy responses differed significantly between the high and low HRR groups (HSG, LSG). The HSG was distinguished by a high degree of ICI and low TMB. LSG had a better response to anti-PD-1 or anti-PD-1 and anti-CTLA4 combination therapy. This work revealed that HRR patterns would contribute to predicting prognosis and immunotherapy response in BC, which may benefit patients.

Genome-wide identification and expression analysis of Autophagy-Related Genes in eggplant (Solanum melongena L.)

Autophagy, a highly conserved cellular process in plants, plays a vital role in regulating abiotic stress responses and senescence. Eggplant is a widely cultivated vegetable crop, its fruit is susceptible to cold damage, and its molecular mechanisms underlying stress tolerance, fruit ripening, and senescence remain largely uncharacterized. In this study, we systematically identified 41 Autophagy-Related Genes (ATGs) in eggplant and through bioinformatics methods, we analyzed their gene structures, evolutionary features, chromosomal locations, and promoter elements. Additionally, we conducted RNA-seq transcriptome analysis of various eggplant organs as well as under different stress conditions, and assessed the expression patterns of the SmATG8 under cold stress in eggplant fruit. Our analysis results show that the SmATGs promoters have diverse cis-regulatory elements, with most SmATGs exhibiting low and stable expression levels in different tissues. Some genes displayed tissue-specific expression patterns. Under 4 °C low-temperature stress, the expression of the SmATG8 family was continuously upregulated, indicating that autophagy plays a crucial role in defending against cold damage in eggplant. Furthermore, we found that ATGs in dicots and monocots exhibit distinct homology patterns. Within the dicots, eggplant and pepper, both being Solanaceae plants, their ATGs exhibit high homology, suggesting that SmATGs in Solanaceae plants have unique homologous relationships. The analysis of SmATGs unveiled their potential contributions to plant stress responses, fruit ripening, and senescence, thus offering a theoretical foundation for further exploration of stress resistance and senescence mechanisms in eggplant.

Reconstruction of a century of air pollution history in Nanjing, China, using trace elements in situ leaf specimens of Platanus × hispanica and Pittosporum tobira

Leaves can specifically uptake trace elements from the surrounding environment. And tree leaves are a good biological indicator for air pollution. Therefore, chemical analysis of leaf specifications can be used to reproduce a historical record of air pollution. To better understand the history of urban air pollution from the 1920s to the 2020s in Nanjing, China, leaf samples of two woody plants, Platanus × hispanica and Pittosporum tobira, were collected in this study as environmental indicators from different historical periods. These included historical herbarium specimens and current leaves from live trees. The concentrations of 10 trace elements were determined in the samples using ICP‒MS. Pollution indices were calculated, yielding the key findings. The historical leaf samples showed continuously increasing mean concentrations of the 10 trace elements over time, which significantly correlating with automobile quantities and the number of large-scale industrial enterprises (p < 0.05). Moreover, modern leaf trace element concentrations were significantly correlated with PM10, PM2.5, automobiles, large-scale industrial enterprises, and atmospheric factors, confirming these as sources. In addition to the historical growth trend, spatial heterogeneity was revealed in historical Platanus × hispanica leaf samples from the 14 sites in Nanjing. Changes in heavy metal trace element pollution distributions were consistent with transportation and industrial expansion, with homologous patterns across elements. Specifically, post 1980s increases were observed in the representative NJ2 (Zhongshan Botanical Garden) and the NJ5(Nanjing University) sites, with higher concentrations occurring at in the NJ5 contaminated site than at the NJ2 uncontaminated site. After 2009, the 10 element (except Cd) pollution indices in Platanus × hispanica leaves fluctuated but declined overall. This reconstruction of Nanjing's air pollution history demonstrates that ample environmental information can be extracted from plant leaf markers over time and space.

Molecular mimicry of SARS-COV-2 antigens as a possible natural anti-cancer preventive immunization.

In the present study we investigated whether peptides derived from the entire SARS-CoV-2 proteome share homology to TAAs (tumor-associated antigens) and cross-reactive CD8+ T cell can be elicited by the BNT162b2 preventive vaccine or the SARS-CoV-2 natural infection. Viral epitopes with high affinity (<100nM) to the HLA-A*02:01 allele were predicted. Shared and variant-specific epitopes were identified. Significant homologies in amino acidic sequence have been found between SARS-CoV-2 peptides and multiple TAAs, mainly associated with breast, liver, melanoma and colon cancers. The molecular mimicry of the viral epitopes and the TAAs was found in all viral proteins, mostly the Orf 1ab and the Spike, which is included in the BNT162b2 vaccine. Predicted structural similarities confirmed the sequence homology and comparable patterns of contact with both HLA and TCR α and β chains were observed. CD8+ T cell clones cross-reactive with the paired peptides have been found by MHC class l-dextramer staining. Our results show for the first time that several SARS-COV-2 antigens are highly homologous to TAAs and cross-reactive T cells are identified in infected and BNT162b2 preventive vaccinated individuals. The implication would be that the SARS-Cov-2 pandemic could represent a natural preventive immunization for breast, liver, melanoma and colon cancers. In the coming years, real-world evidences will provide the final proof for such immunological experimental evidence. Moreover, such SARS-CoV-2 epitopes can be used to develop "multi-cancer" off-the-shelf preventive/therapeutic vaccine formulations, with higher antigenicity and immunogenicity than over-expressed tumor self-antigens, for the potential valuable benefit of thousands of cancer patients around the World.

Homologous Recombination Repair Testing Patterns and Outcomes in mCRPC by Alteration Status and Race.

Alterations in DNA damage repair genes in advanced prostate cancer (PC) may impact responses to therapy and clinical outcomes. This study described homologous recombination repair (HRR) testing patterns and clinical outcomes among patients with metastatic castration-resistant prostate cancer (mCRPC) by HRR alteration status and race in the United States (US). Clinical data in the nationwide (US-based) Flatiron Health-Foundation Medicine, Inc. (FMI) Metastatic PC Clinico-Genomic Database were evaluated (01/01/2011-12/31/2022). Patients initiating first-line (1L) mCRPC therapy on or after mCRPC diagnosis were included. Testing patterns, time-to-next treatment, overall survival (OS), and time-to-prostate specific antigen response were described. Of the 1367 patients with mCRPC and at least one HRR panel test prior to or on the date of 1L mCRPC therapy initiation, 332 (24.3%) were HRR positive (White patients: n = 219 [66.0%]; Black patients: n = 37 [11.1%]) and 1035 (75.7%) were HRR negative (White patients: n = 702 [67.8%]; Black patients: n = 84 [8.1%]). The mean time between first positive test and 1L mCRPC therapy initiation date was 588 days (White patients: 589 days; Black patients: 639 days). Among HRR positive relative to negative patients, trends for faster progression (respective 12-month rate overall: 71.1% and 63.7%; White patients: 72.5% and 64.0%; Black patients: 65.4% and 56.4%), shorter OS (respective 24-month rate overall: 46.8% and 51.9%; White patients: 48.6% and 46.2%; Black patients: 52.8% and 54.1%), and decreased treatment response (respective 12-month rate overall: 24.3% and 37.9%; White patients: 24.5% and 35.2%; Black patients: 17.0% and 43.9%) were observed. Patients with mCRPC positive for HRR alterations tended to exhibit poorer treatment responses and clinical outcomes than those with a negative status. These findings highlight the importance of timely genetic testing in mCRPC, particularly among Black patients, and the need for improved 1L targeted therapies to address the unmet need in HRR positive mCRPC.

Characterization of short-, medium-, and long-chain chlorinated paraffins in Tibetan butter and implications for local human exposure

Since short-chain chlorinated paraffins (SCCPs) were severely restricted under the Stockholm Convention in 2017, a shift to the production of other chlorinated paraffin (CP) groups has occurred, particularly medium-chain (MCCPs) and long-chain CPs (LCCPs), although data on the latter are sparser in the literature. This study described the occurrence of three types of CPs in butter samples from six livestock milk sources across 15 sites in Tibet. The median levels of SCCPs, MCCPs, and LCCPs were 132, 456, and 13.2 ng/g lipid, respectively. The detection rate of 97.6% suggests that LCCPs can be transmitted to humans. Thus, all CPs, regardless of their chain length and degree of chlorination, should be treated with caution. The differences in concentration were mainly caused by dynamic wet deposition and thermodynamic cold-trapping effects across the different districts. The homolog pattern of CPs varied widely across livestock species, which was attributed to the diverse impacts of the physicochemical properties of the homologs, especially the heterogeneity in the uptake and transfer of CPs across different organisms. Under three different criteria, the health risks associated with the daily intake of SCCPs should not be neglected, especially considering other intake exposure pathways and the degradation of longer-carbon-chain monomers.

Clinical and capillaroscopy correlation of Pentraxin 3 and mean platelet volume in patients with systemic sclerosis: A case control study

Systemic sclerosis (SSc) is a systemic connective tissue disease with vasculopathy and tissue fibrosis. Mean platelet volume (MPV) indicates the platelet activation and independent risk factor for arterial diseases. Long pentraxin, or pentraxin-3 (PTX3), is a homologous pattern recognition receptor mainly presented in inflammatory diseases with some inhibitory effects on chronic inflammation. This study aimed to evaluate the relationship between clinical and capillaroscopy manifestations of patients with SSc, MPV, and PTX3 levels compared to thecontrol group. This case-control study was conducted on patients who met the SSc diagnostic criteria. Accordingly, clinical manifestations and capillaroscopy data were recorded. Thus, the MPV and PTX3 levels of the patients and the control group were checked. Then, the relationship between the clinical and capillaroscopy results was evaluated. The mean ± SD of MPV in the control group and patients was 10.11 ± 0.96 fL and 9.65 ± 1.13 fL, respectively (P-value = 0.043). In addition, the PTX3 level was 3.60 ± 8.98 and 1.79 ± 5.77 ng/ml, respectively (P-value = 0.223). The relationship of these factors with the clinical and capillaroscopy results was insignificant (P-value &gt; 0.05). Based on the results, the MPV level was significantly lower in patients with SSc than controls, while the PTX3 level did not differ between the groups. Moreover, there was no relationship between PTX3 and MPV levels with the capillaroscopy and clinical results. However, further studies with larger sample sizes are recommended.

Novel approaches to functional lateralization: Assessing information in activity patterns across hemispheres and more accurately identifying structural homologues

Functional lateralization is typically measured by comparing activation levels across the right and left hemispheres of the brain. Significant additional information, however, exists within distributed multi-voxel patterns of activity – a format not detectable by traditional activation-based analysis of functional magnetic resonance imaging (fMRI) data. We introduce and test two methods –one anatomical, one functional– that allow hemispheric information asymmetries to be detected. We first introduce and apply a novel tool that draws on brain ‘surface fingerprints’ to pair every location in one hemisphere with its hemispheric homologue. We use anatomical data to show that this approach is more accurate than the common distance-from-midline method for comparing bilateral regions. Next, we introduce a complementary analysis method that quantifies multivariate laterality in functional data. This new ‘multivariate Laterality Index’ (mLI) reflects both quantitative and qualitative information-differences across homologous activity patterns. We apply the technique here to functional data collected as participants viewed faces and non-faces. Using the previously generated surface fingerprints to pair-up homologous searchlights in each hemisphere, we use the novel multivariate laterality technique to identify face-information asymmetries across right and left counterparts of the fusiform gyrus, inferior temporal gyrus, superior parietal lobule, and early visual areas. The typical location of the fusiform face area has greater information asymmetry for faces than for shapes. More generally, we argue that the field should consider an information-based approach to lateralization.

Microwave and enzyme co-assisted extraction of anthocyanins from Purple-heart Radish: Process optimization, composition analysis and antioxidant activity

Purple-heart Radish named “Xinlinmei” is rich in anthocyanins by specific cultivation. In this work, a novel method for synergistic extraction of anthocyanins from Purple-heart Radish was developed by combining microwave-assisted extraction (MAE) with enzyme-assisted extraction (EAE). Integration of MAE and EAE was optimized by screening various enzymes and combination approaches, followed by investigation of process parameters with single-factor experiments and response surface methodology (RSM). The optimized conditions by RSM were as follow: 25.0 g/100 g cellulase dosage, 60 mL/100 mL ethanol concentration, pH 4.0, 50 °C temperature, 7.15 min extraction time, 80 mesh particle size and 60:1 mL/g liquid-to-material ratio, yielding a maximum response predicted and experimental values of 6.292 and 6.125 ± 0.034 mg/g respectively. Based on the synergistic effect, MAE-EAE achieved higher extraction efficiency compared to the other extraction methods such as MAE, UAE and EAE etc. By means of HPLC-Q-Orbitrap/MS and HPLC, 11 anthocyanins extracted were identified and quantified as pelargonins with different glucosides, exhibiting quite homologous fragmentation pattern, biometabolic products and satisfactory yield. The antioxidation capacity of the extracted and purified products was evaluated by DPPH, ABTS and anti-lipid peroxidant assays, suggesting that the anthocyanins purified by the macroporous resin had stronger antioxidant activity. This study provided an efficient and promising approach to improve extraction of the anthocyanins from Purple-heart Radish, and a new source of pelargonins as a powerful antioxidant to be developed.

Occurrence of Persistent Organochlorine Pollutants in Sediments from Lake Piediluco, Italy

In surficial sediments of Lake Piediluco, a small, riverine, regulated and heavily modified water body in the Central Italian Apennines, contamination by persistent organochlorine pollutants (POPs) was assessed. During spring and autumn, six representative points were investigated. Reflecting a substantial zonation of pollution within this aquatic ecosystem, concentrations were found to vary from site to site. OCPs, particularly DDT and its metabolites DDE and DDD, were detected at varying frequencies and concentrations from 0.301 to 8.185 ng/g d.w., whilst total PCBs (Σ50 congeners) were from 0.570 to 10.206 ng/g d.w. Although both PCB congener-specific and homolog patterns suggest a prevalent presence of Aroclors 1254 and 1260, a more limited likely contribution of 1248 technical mixture is not to be excluded. In the western area of the lake, affected daily by continuous basin water remixing for hydroelectricity production, major seasonal differences in OCP concentrations were found. Conversely, the eastern area was typified by low seasonal fluctuation and small variation among sites. Regardless of either collection site or seasonality, polychlorinated-p-dioxin and furan (PCDD/Fs) contamination were below 8.3 pg WHO-TEQ/g. In contrast to the present study, POP pollution from PCBs, PCDD/Fs and some DDT-derived pollutants has not been investigated so far. Nevertheless, the concentrations are typical of low-polluted or pristine area lakes and are consistently lower than those of other Italian lakes of greater size and depth (e.g., Como, Garda and Maggiore). The physical and chemical properties of investigated analytes are more consistent with probable diffuse point source contamination originating from the catchment area, rather than from atmospheric depositions by regional or long-range transports. Finally, according to the international sediment quality guidelines (SQGs), Piediluco sediments pose a low risk to sediment-dwelling organisms and, more generally, to the wildlife of such aquatic ecosystems.

ARTC1-mediated VAPB ADP-ribosylation regulates calcium homeostasis.

Mono-ADP-ribosylation (MARylation) is a post-translational modification that regulates a variety of biological processes, including DNA damage repair, cell proliferation, metabolism, and stress and immune responses. In mammals, MARylation is mainly catalyzed by ADP-ribosyltransferases (ARTs), which consist of two groups: ART cholera toxin-like (ARTCs) and ART diphtheria toxin-like (ARTDs, also known as PARPs). The human ARTC (hARTC) family is composed of four members: two active mono-ADP-ARTs (hARTC1 and hARTC5) and two enzymatically inactive enzymes (hARTC3 and hARTC4). In this study, we systematically examined the homology, expression, and localization pattern of the hARTC family, with a particular focus on hARTC1. Our results showed that hARTC3 interacted with hARTC1 and promoted the enzymatic activity of hARTC1 by stabilizing hARTC1. We also identified vesicle-associated membrane protein-associated protein B (VAPB) as a new target of hARTC1 and pinpointed Arg50 of VAPB as the ADP-ribosylation site. Furthermore, we demonstrated that knockdown of hARTC1 impaired intracellular calcium homeostasis, highlighting the functional importance of hARTC1-mediated VAPB Arg50 ADP-ribosylation in regulating calcium homeostasis. In summary, our study identified a new target of hARTC1 in the endoplasmic reticulum and suggested that ARTC1 plays a role in regulating calcium signaling.

Concentrations and homologue patterns of SCCPs and MCCPs in the serum of the general population of adults in Hangzhou, China

Due to their ubiquitous presence in the environment and humans, chlorinated paraffins (CPs) are a major environmental and public health concern. CPs are known to persist, bioaccumulate and potentially threaten human health, but reports on their internal exposure in the adult general population are still scarce. In this study, serum samples collected from adults living in Hangzhou, China, were quantified for SCCPs and MCCPs using GC-NCI-MS methods. A total of 150 samples were collected and subjected to analysis. ∑SCCPs were detected in 98% of the samples with a median concentration of 721 ng/g lw. MCCPs were found in all serum samples with a median concentration of 2210 ng/g lw, indicating that MCCPs were the dominant homologous group. For SCCPs and MCCPs, ∑C10 and ∑C14 were found to be the dominant carbon chain length homologues. Our results showed that age, BMI and lifestyle were not found to be significantly associated with internal exposure to CPs for the samples in this study. Based on PCA analysis, an age-specific distribution of CP homologues was observed. This suggests that internal exposure to CPs in the general population is related to exposure scenarios and history. The results of this study may contribute to a better understanding of the internal exposure to CPs in the general population and may provide a direction for the investigation of the source of exposure to CPs in the environment and daily life.

An exonuclease V homologue is expressed predominantly during early megasporogenesis in apomictic Brachiaria brizantha.

An exonuclease V homologue from apomictic Brachiaria brizantha is expressed and localized in nucellar cells at key moments when these cells differentiate to give rise to unreduced gametophytes. Brachiaria is a genus of forage grasses with economical and agricultural importance to Brazil. Brachiaria reproduces by aposporic apomixis, in which unreduced embryo sacs, derived from nucellar cells, other than the megaspore mother cell (MMC), are formed. The unreduced embryo sacs produce an embryo without fertilization resulting in clones of the mother plant. Comparative gene expression analysis in ovaries of sexual and apomictic Brachiaria spp. revealed a sequence from B. brizantha that showed a distinct pattern of expression in ovaries of sexual and apomictic plants. In this work, we describe a gene named BbrizExoV with strong identity to exonuclease V (Exo V) genes from other grasses. Sequence analysis in signal prediction tools showed that BbrizExoV might have dual localization, depending on the translation point. A longer form to the nucleus and a shorter form which would be directed to the chloroplast. This is also the case for monocot sequences analyzed from other species. The long form of BbrizExoV protein localizes to the nucleus of onion epidermal cells. Analysis of ExoV proteins from dicot species, with exception of Arabidopsis thaliana ExoVL protein, showed only one localization. Using a template-based AlphaFold 2 modelling approach the structure of BbrizExoV in complex with metal and ssDNA was predicted based on the holo structure of the human counterpart. Features predicted to define ssDNA binding but a lack of sequence specificity are shared between the human enzyme and BbrizExoV. Expression analyses indicated the precise site and timing of transcript accumulation during ovule development, which coincides with the differentiation of nucelar cells to form the typical aposporic four-celled unreduced gametophyte. A putative function for this protein is proposed based on its homology and expression pattern.

Biomonitoring, exposure routes and risk assessment of chlorinated paraffins in humans: a mini-review.

Chlorinated paraffins (CPs), which were conventionally classified into short- (SCCPs), medium- (MCCPs) and long- (LCCPs) chain CPs, have received growing attention due to their wide usage and extensive detection in environmental samples and biota. The number of studies regarding the biomonitoring of CPs in human beings increased rapidly and their health risk gained great concern. This review summarized their occurrence and homologue patterns in human matrices including blood/serum, placenta, cord serum and breast milk. As the production and usage of SCCPs was progressively banned after being listed in Annex A of the Stockholm Convention, the production of MCCPs and LCCPs was stimulated. Accordingly, the ratio of MCCPs/SCCPs in human samples has increased rapidly in the last 5 years. The current understanding of exposure routes and risk assessments of CPs was also reviewed. Oral dietary intake is the most predominant source of daily CP intake, but dust ingestion, inhalation and dermal exposure is also nonnegligible, especially for MCCPs and LCCPs. Furthermore, the reported upper bound of the estimated daily intakes (EDIs) in various risk assessment studies was close to or exceeded the tolerable daily intakes (TDIs). Considering the bioaccumulation and long-lasting exposure of CPs, their health impacts on humans and the ecosystem required continuous monitoring and evaluation.