Biology subjects

Chen, J.-C.

Publications and source records attributed to Chen, J.-C..

12 recordsLinked to original sources

bioRxiv2026

Air Pollution, Early Adversity, and Amygdala: Environmental Correlates of Psychopathology in Preadolescents

Early life adversity (ELA) and ambient fine particulate matter (PM2.5) are hypothesized to be environmental risk factors for altered brain structure and psychopathology, but their unique and interactive effects in childhood remain unclear. This study examines the interactive associations of ELA and annual average residential PM2.5 exposure (total mass and 15 components) on total amygdala and basolateral amygdala subregion volumes and psychopathology symptoms in a subset of children (N=3,601, 45% assigned female at birth, 9-10 years) from the Adolescent Brain Cognitive Development Study. Linear mixed-effects models, adjusting for sociodemographic factors, co-pollutants, and neuroimaging covariates, showed that ELA was associated with greater bifactor model-defined general, specific internalizing, and specific externalizing symptoms of psychopathology. PM2.5 moderated ELA associations with specific externalizing symptoms, with greater symptoms in those exposed to higher ELA and higher PM2.5 exposures. Among youth with higher ELA, smaller basolateral paralaminar volumes were linked to greater general and specific externalizing symptoms. These findings underscore the importance of considering psychosocial and physical environmental co-exposures when identifying children at risk for psychopathology.

neuroscience↗

bioRxiv2025

Outdoor Air Pollution, Perivascular Space Morphology, and Cognition in Preadolescence

BackgroundAmbient air pollution exposure is associated with structural brain differences and poorer cognition in children; however, mechanisms of toxicity remain unclear. Perivascular spaces (PVS), key for brain waste clearance, may play a role in the neurotoxicity of air pollution. This study explored associations between air pollution exposure, PVS morphology, and cognition in preadolescents. MethodsWe analyzed cross-sectional Adolescent Brain Cognitive DevelopmentSM (ABCD) Study(R) data from 6,949 9-10-year-old participants. Annual average exposures to PM2.5, O3, NO2, and 15 PM2.5 components were estimated using spatiotemporal models mapped to residential addresses. PVS count and volume were derived from T1w and T2w MRI, and cognition was estimated using NIH Toolbox scores. Linear mixed-effects models examined independent associations between air pollution, PVS, and cognition; weighted quantile sum regression assessed co-exposure effects of PM2.5 mixtures. FindingsLinear models revealed that exposures to Zn, NH4 +, and Br were positively associated with PVS count in several regions. Higher PVS count in five key regions was associated with poorer cognitive performance across several NIH Toolbox domains. Higher Ca, Zn, and NH 4 + exposures were associated with poorer cognition (PFDR < 0.01). Higher frontal lobe PVS count mediated the association between Zn exposure and poorer total cognition (P < 0.01). Co-exposure models revealed that PM2.5 mixtures were associated with higher temporal and cingulate PVS count, and poorer working memory and crystallized intelligence (P < 0.01). InterpretationOutdoor air pollution was associated with higher PVS count and reduced cognition, suggesting that brain clearance may be a novel mechanism linking pollution to neurodevelopmental harm in preadolescents. FundingThis work was supported by the National Institutes of Health (NIH) National Institute of Environmental Health Sciences (NIEHS) (Grant Nos. R01ES032295 and R01ES031074 [to MMH]; T32ES013678 [to JM]; P30ES07048 [to JM and MAR]; 3P30ES000002-55S [to MAR]), National Institute of Mental Health (NIMH) (Grant RF1MH123223 [to JC]), National Institute of Neurological Disorders and Stroke (Grant R01NS128486 [to JC]), and EPA grants (Grant Nos. 83587201 and 83544101 [to JS]).

neuroscience↗

bioRxiv2025

Sources of outdoor air pollution exposure and child brain network development across the United States

Ambient fine particulate matter (PM2.5) pollution is a heterogeneous mixture of chemicals with documented neurotoxic effects. Developmental neuroimaging literature has linked childhood PM2.5 exposure to alterations in brain morphology, microarchitecture, and function, with implications for cognition and psychopathology. However, the extant literature remains largely cross-sectional and often considers PM2.5 a single pollutant, rather than a heterogeneous mixture of chemicals from different sources. This work addresses these gaps by leveraging estimates of exposure to six PM2.5 sources derived from positive matrix factorization, and longitudinal neuroimaging data from a large, geographically-diverse sample of Adolescent Brain Cognitive Development Study youth (N = 6,291) from across the United States (U.S.). To identify exposure-related differences in brain function and assess their geographical generalizability, we used a predictive modeling approach to assess both differences in functional brain network connectivity during childhood (9-11 years of age) and changes in functional brain network connectivity during the transition to adolescence (9-13 years of age) related to PM2.5 exposure. Childhood PM2.5 exposure from traffic emissions and industrial/residual fuel burning were linked to mixed patterns of both stronger and weaker connectivity of sensorimotor networks at ages 9-11 years. Conversely, childhood exposures to secondary pollutants (i.e., ammonium sulfates, nitrates) were linked to largely stronger connectivity of brain networks underlying higher-order cognition that decreased over the following two years. However, these patterns of exposure-related functional connectivity identified in youth across the U.S. better represented youth living in the northeast as compared to youth living in the west. Altogether, this work provides insights into the neurotoxicity of outdoor air pollution exposure in developing sensory and motor systems and potential for biomarkers of eventual psychopathology.

neuroscience↗

bioRxiv2025

Ambient Pollution Components and Sources Associated with Hippocampal Architecture and Memory in Pre-Adolescents

BackgroundAmbient air pollution poses significant risks to brain health. The hippocampus may be particularly vulnerable, yet the extent to which it is impacted in children remains unclear. MethodsUsing partial least squares correlation, we cross-sectionally analyzed air pollution, brain, and cognitive data from the Adolescent Brain Cognitive Development Study to examine how multi-pollutant exposure influences hippocampal structure and memory in 9-11-year-olds (n= 7,940). Annual average air pollution exposures included PM2.5 (total mass, 15 components, and 6 source factors), NO2, and 8-hour maximum O3. Hippocampal outcomes included microstructure measured using Restriction Spectrum Imaging and hippocampus longitudinal-axis (i.e., head, body, tail) volumes. We examined hippocampal-dependent list-learning using the Rey Auditory Verbal Learning Test. Models were adjusted for demographic, socioeconomic, and neuroimaging factors. FindingsPM2.5 total mass was associated with hippocampal microstructure, but not long-axis volume or list-learning ability. Component and source analyses provided greater specificity: higher bromine, sulfate, and vanadium exposure was related to microstructure (72% shared variance), while higher copper and zinc exposure correlated with smaller left head and right body and tail volumes (75% shared variance). Source models implicated biomass burning and traffic pollution in microstructure (61% and 32% shared variance) and industrial and traffic sources in smaller hippocampal volumes (77% shared variance). Higher exposure to several components were also linked to poorer list-learning (67% shared variance). DiscussionCo-exposure to multiple pollutants is linked to differences in hippocampal structure and memory, showing that associations are driven not only by PM2.5 total mass but also by specific components and sources. This evidence underscores the necessity of targeting source-specific (e.g., biomass burning, traffic, and industrial emissions) and constituent components (e.g., metals) of air pollution during critical developmental windows to safeguard brain health.

neuroscience↗

bioRxiv2025

Unprecedented Number of Recurrent Mutations Drive the Rapid Evolution of Pesticide Resistance in a Notorious Pest

The genetic basis of pesticide resistance has been widely studied, but the exact nature of this evolutionary process in the field is often unclear, particularly when a limited number of populations is considered and when there is a lag between the evolutionary event and its investigation. We showed that an unprecedented number of recurrently evolved mutations in an arthropod pest, the two-spotted spider mite Tetranychus urticae, drive the rapid evolution of resistance to a recently commercialized acaricide, cyetpyrafen. We first observed high levels of resistance that appeared and became widespread within three years. Genome scans revealed genetic heterogeneity of resistance among populations and identified 15 target mutations, including six mutations on five amino acid residues of subunit sdhB, and nine mutations on three amino acid residues of subunit sdhD of the pesticide target succinate dehydrogenase, with as many as five substitutions on one residue. No mutations were present in 2666 screened historical specimens, suggesting that mutations arose rapidly through de novo substitutions or from very rare segregating mutations. Identical mutations recurrently appeared in different genetic backgrounds, increasing the likelihood of resistance evolution. The high number of mutational options available for the evolution of target site resistance in this pest challenges resistance management practices.

evolutionary biology↗

bioRxiv2024

Outdoor Air Pollution Relates to Amygdala Subregion Volume and Apportionment in Early Adolescents

BackgroundOutdoor air pollution is associated with an increased risk for psychopathology. Although the neural mechanisms remain unclear, air pollutants may impact mental health by altering limbic brain regions, such as the amygdala. Here, we examine the association between ambient air pollution exposure and amygdala subregion volumes in 9-10-year-olds. MethodsCross-sectional Adolescent Brain Cognitive DevelopmentSM (ABCD) Study(R) data from 4,473 participants (55.4% male) were leveraged. Air pollution was estimated for each participants primary residential address. Using the probabilistic CIT168 atlas, we quantified total amygdala and 9 distinct subregion volumes from T1- and T2-weighted images. First, we examined how criteria pollutants (i.e., fine particulate matter [PM2.5], nitrogen dioxide, ground-level ozone) and 15 PM2.5 components related with total amygdala volumes using linear mixed-effect (LME) regression. Next, partial least squares correlation (PLSC) analyses were implemented to identify relationships between co-exposure to criteria pollutants as well as PM2.5 components and amygdala subregion volumes. We also conducted complementary analyses to assess subregion apportionment using amygdala relative volume fractions (RVFs). ResultsNo significant associations were detected between pollutants and total amygdala volumes. Using PLSC, one latent dimension (LD) (52% variance explained) captured a positive association between calcium and several basolateral subregions. LDs were also identified for amygdala RVFs (ranging from 30% to 82% variance explained), with PM2.5 and component co-exposure associated with increases in lateral, but decreases in medial and central, RVFs. ConclusionsFine particulate and its components are linked with distinct amygdala differences, potentially playing a role in risk for adolescent mental health problems. Graphical Abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=123 SRC="FIGDIR/small/617429v1_ufig1.gif" ALT="Figure 1"> View larger version (23K): org.highwire.dtl.DTLVardef@e9f2ecorg.highwire.dtl.DTLVardef@14b677forg.highwire.dtl.DTLVardef@177f8daorg.highwire.dtl.DTLVardef@172dc0c_HPS_FORMAT_FIGEXP M_FIG C_FIG

neuroscience↗

bioRxiv2022

UNSUPERVISED HARMONIZATION OF BRAIN MRI USING 3D CYCLE GANS AND ITS EFFECT ON BRAIN AGE PREDICTION

Deep learning methods trained on brain MRI data from one scanner or imaging protocol can fail catastrophically when tested on data from other sites or protocols - a problem known as domain shift. To address this, here we propose a domain adaptation method that trains a 3D CycleGAN (cycle-consistent generative adversarial network) to harmonize brain MRI data from 5 diverse sources (ADNI, WHIMS, OASIS, AIBL, and UK Biobank; total N=4,941 MRIs, age range: 46-96 years). The approach uses 2 generators and 2 discriminators to generate an image harmonized to a specific target dataset given an image from the source domain distribution and vice versa. We train the CycleGAN to jointly optimize an adversarial loss and cyclic consistency. We use a patch-based discriminator and impose identity loss to further regularize model training. To test the benefit of the harmonization, we show that brain age estimation - a common benchmarking task - is more accurate in GAN-harmonized versus raw data. t-SNE maps show the improved distributional overlap of the harmonized data in the latent space.

neuroscience↗

bioRxiv2020

The oriental fruit moth genome provides insights into evolutionary adaptation of tortricid pests

Moths of the family Tortricidae (Insecta: Lepidoptera) usually distribute in temperate and tropical high upland regions. The oriental fruit moth (OFM) Grapholita molesta is a globally important pest of stone and pome fruit from this family. In this study, we assembled a chromosome-level genome for the OFM and conducted a comparative genomic analysis with other lepidopterans. This genome was assembled to 28 chromosomes with a size of 517.71 Mb, an N50 of 19.5 Mb, and a BUSCO completeness of 97.1%. In total, 19968 protein-coding genes were predicted, among which 15269 were functionally annotated. We manually annotated ten gene families for 13 representative genomes from the Lepidopteran. In general, two tortricid moths have a moderate number of detoxification and receptor genes and the lowest number of HSP genes, congruent with their polyphagous dietary and pattern of distribution. However, the OFM has the highest number of P450, I Rs and ORs among all species. Compared to the other tortricid species of the codling moth Cydia pomonella, the OFM has more genes in all gene families. Our results indicate that the high number of some detoxification and receptor genes may be related to the strong adaptation of OFM as a global pest. The high-quality genome of OFM provides an invaluable resource for understanding the ecology, genetics, and evolution of tortricid moths.

genomics↗

bioRxiv2020

Similar gut bacterial microbiota in two fruit-feeding moth pests collected from different host species and locations

Numerous gut microbes are associated with insects, but their composition remains largely unknown for many insect groups, along with factors influencing their composition. Here, we compared gut bacterial microbiota of two co-occurring agricultural pests, the peach fruit moth (PFM) and the oriental fruit moth (OFM), collected from different orchards and host plant species. Gut microbiota of both species was mainly composed of bacteria from Proteobacteria, followed by Firmicutes. The two species shared bacteria from the genera Pseudomonas, Gluconobacter, Acetobacter, and Pantoea, although endosymbiotic Wolbachia was the most abundant genus in PFM and Lactobacillus was the most abundant in OFM. PFM tended to have lower diversity and richness of gut microbiota than OFM; however, only some of the comparisons were statistically significant. Orchards can influence gut microbiota in terms of richness, particularly for PFM, but not so much for diversity parameters. Functional prediction of gut microbiota showed that the top pathways are amino acid metabolism, translation, and membrane transport in both species, but their abundance varied between the two moth species. These results show that two fruit moths share many features of gut microbiota, and the bacterial species are relatively stable within moth species even when they use different host plants. Our study suggests that fruit-feeding behavior may play a role in shaping gut microbiota of the two fruit moths, which may provide microbial targets for pest control. ImportanceUnderstanding the associated microbes with insects can point to new targets for pest control. Here we compared bacterial community in the gut of two co-occurring agricultural pests, the peach fruit moth (PFM) and the oriental fruit moth (OFM), collected from different orchards and host plant species. We found that the bacterial genera Pseudomonas, Gluconobacter, Acetobacter, and Pantoea are abundant and shared in two moths. The composition of the bacterial species is relatively stable within moth species even when they use different host plants, indicating that the gut microbiota community in the PFM and OFM is likely to be related to their fruit-feeding behavior. The findings have implications for developing novel pest control approaches by targeting gut microbes associated with the two moths.

microbiology↗

bioRxiv2020

Deficiency of cyclin-dependent kinase-like 5 causes spontaneous seizures in neonatal mice

Cyclin-dependent kinase-like 5 (CDKL5), an X-linked gene encoding a serine-threonine kinase, is enriched in the mammalian forebrain and critical for neuronal maturation and synaptic function. Mutations in this gene cause CDKL5 deficiency disorder (CDD) that is characterized by early-onset epileptic seizures, autistic behaviors and intellectual disability. Although numerous CDD symptoms have been recapitulated in mouse models, spontaneous seizures have not been reported in mice with CDKL5 deficiency. Here, we present the first systematic study of spontaneous seizures in a mouse model of CDD. Through wireless electroencephalographic (EEG) recording and simultaneous videotaping, we observed epileptiform discharges accompanied with ictal behaviors in pups lacking CDKL5 at a selective time window during the pre-weaning period. The seizure-like patterns of EEG showed robust increase in total number of spike events, the total number and duration of bursts in Cdkl5 null pups compared to wild-type littermate controls at the age of postnatal day 12 (P12). The mutants displayed not only jerky and spasm-like movements during the prolonged bursts of discharges at P12, but also strengthened ictal grasping in both juvenile stage and adulthood. In addition, loss of CDKL5 remarkably reduced the phosphorylation of K+/Cl- co-transporter 2, which may impede GABA-mediated inhibition, in the cortex of P12 mouse pups. Our study reveals previously unidentified phenotypes of early-onset seizures in CDKL5-deficient mice, highlights the translational value of mouse models of CDD and provides a potential molecular target for early diagnosis and treatment for CDD. Significance StatementCyclin-dependent kinase-like 5 (CDKL5) is an X-linked gene encoding a serine-threonine kinase. Mutations in this gene cause CDKL5 deficiency disorder (CDD), a rare disease characterized by developmental delays, autistic behaviors and early-onset epilepsy. Even though many symptoms of CDD patients have been phenocopied in mice, spontaneous seizures are yet to be reported in mouse models of CDD. Here, for the first time, we identified early-onset seizures and ictal behaviors in neonatal pups of CDKL5-deficient mice. Loss of CDKL5 also selectively reduced protein levels of phosphorylated K+/Cl-cotransporter 2 in neonatal cortex of mice. Our study reveals an indispensible role of CDKL5 in regulating neuronal excitability in developing brains and highlights the translational significance of the CDD mouse models.

neuroscience↗

bioRxiv2017

Longitudinal Analysis of Particulate Air Pollutants and Adolescent Delinquent Behavior in Southern California

Animal experiments and cross-sectional human studies have linked particulate matter (PM) with increased behavioral problems. We conducted a longitudinal study to examine whether the trajectories of delinquent behavior are affected by PM2.5 (PM with aerodynamic diameter [≤]2.5 m) exposures before and during adolescence. We used the parent-reported Child Behavior Checklist at age 9-18 with repeated measures every ~2-3 years (up to 4 behavioral assessments) on 682 children from the Risk Factors for Antisocial Behavior Study conducted in a multi-ethnic cohort of twins born in 1990-1995. Based on prospectively-collected residential addresses and a spatiotemporal model of ambient air concentrations in Southern California, monthly PM2.5 estimates were aggregated to represent long-term (1-, 2-, 3-year average) exposures preceding baseline and cumulative average exposure until the last assessment. Multilevel mixed-effects models were used to examine the association between PM2.5 exposure and individual trajectories of delinquent behavior, adjusting for within-family/within-individual correlations and potential confounders. We also examined whether psychosocial factors modified this association. The results suggest that PM2.5 exposure at baseline and cumulative exposure during follow-up was significantly associated (p<0.05) with increased delinquent behavior. The estimated effect sizes (per interquartile increase of PM2.5 by 3.12-5.18 {micro}g/m3) were equivalent to the difference in delinquency scores between adolescents who are 3.5-4 years apart in age. The adverse effect was stronger in families with unfavorable parent-to-child relationships, increased parental stress or maternal depressive symptoms. Overall, these findings suggest long-term PM2.5 exposure may increase delinquent behavior of urban-dwelling adolescents, with the resulting neurotoxic effect aggravated by psychosocial adversities.

epidemiology↗

bioRxiv2017

Socioeconomic Disparities and Sexual Dimorphism in Neurotoxic Effects of Ambient Fine Particles on Youth IQ: A Longitudinal Analysis

Mounting evidence indicates that early-life exposure to particulate air pollutants pose threats to childrens cognitive development, but studies about the neurotoxic effects associated with exposures during adolescence remain unclear. We examined whether exposure to ambient fine particles (PM2.5) at residential locations affects intelligence quotient (IQ) during pre-/early-adolescence (ages 9-11) and emerging adulthood (ages 18-20) in a demographically-diverse population (N = 1,360) residing in Southern California. Increased ambient PM2.5 levels were associated with decreased IQ scores. This association was more evident for Performance IQ (PIQ), but less for Verbal IQ, assessed by the Wechsler Abbreviated Scale of Intelligence. For each inter-quartile (7.73 g/m3) increase in one-year PM2.5 preceding each assessment, the average PIQ score decreased by 3.08 points (95% confidence interval = [-6.04, -0.12]) accounting for within-family/within-individual correlations, demographic characteristics, family socioeconomic status (SES), parents cognitive abilities, neighborhood characteristics, and other spatial confounders. The adverse effect was 150% greater in low SES families and 89% stronger in males, compared to their counterparts. Better understanding of the social disparities and sexual dimorphism in the adverse PM2.5-IQ effects may help elucidate the underlying mechanisms and shed light on prevention strategies.

epidemiology↗