Effect of Soil Environment on Species Diversity of Desert Plant Communities

Desert ecosystems possess an astonishing biodiversity and are rich in endangered species. This study investigated characteristics of species diversity and soil environmental factors in three major deserts of China's Alxa Plateau. The Alxa Desert included 183 plant species belonging to 109 genera and 35 families. The highest numbers of plant species belonged to the Compositae, Gramineae, and Chenopodiaceae families. The research area belongs to the semi-shrub and small semi-shrub deserts in temperate deserts. Species diversity was low, with the Shannon-Wiener index (H') of shrub-herb = shrub > herb > tree. The Pielou evenness index (E) of shrub herb vegetation was the lowest, indicating more enriched species and fewer sparse species in the community, and that these types of vegetation had the characteristics of rich and obviously dominant species. Redundancy analysis (RDA) and correlations between the comprehensive plant community biodiversity index and soil factors indicated that soil-available phosphorus (NP), organic matter (SOM), and electrical conductivity (EC) had significant impacts on community species diversity. The herbaceous shrub community exhibited the highest H', Simpson index (D), species richness index (S), soil moisture (SW), and soil nutrients. Planting Calligonum mongolicum, Ephedra membranacea, Artemisia annua, and Phragmites australis to form a typical desert shrub community for community diversity protection is recommended to effectively protect and restore desert ecosystems.

Responses of grassland ecosystem carbon fluxes to precipitation and their environmental factors in the Badain Jaran Desert

Studying the effects of precipitation on carbon exchange in grassland ecosystems is critical for revealing the mechanisms of the carbon cycle. In this study, the eddy covariance (EC) technique was used to monitor the carbon fluxes in a grassland ecosystem in the Badain Jaran Desert (BJD) during the growing season from 2018 to 2020. The responses of net ecosystem CO₂ exchange (NEE), ecosystem respiration (R_eco), and gross primary productivity (GPP) to precipitation were analysed, as well as the effects of environmental factors on carbon fluxes at half-hour and daily scales. The results showed that (1) during the growing seasons in 2019 and 2020, the grassland ecosystem in a lake basin in the BJD was a net CO₂ sink, and the cumulative NEE was - 91.9 and - 79.2 g C m^-2, respectively. The greater the total precipitation in the growing season, the stronger the carbon sequestration capacity of a grassland ecosystem. (2) The precipitation intensity, frequency, and timing significantly affected the carbon fluxes in the ecosystem. Isolated minor precipitation events did not trigger obvious NEE, GPP, and R_eco pulses. However, large precipitation events or continuous minor precipitation events over several days caused delayed high assimilation; in addition, the greater the precipitation intensity, the greater the carbon flux pulse and carbon assimilation. The timing and frequency of precipitation events had more important effects on carbon exchange than total precipitation. Droughts create a shift in grasslands, causing them to move from being a carbon sink to a carbon source. (3) Correlation analysis showed that NEE was significantly negatively correlated with photosynthetically active radiation (PAR). On the half-hour scale, R_eco and GPP were significantly positively correlated with soil temperature at 5 cm deep (T_s5) and PAR, respectively. However, they were strongly correlated with air temperature (T_a), soil surface temperature (T_s) and (T_s5) on the daily scale. The correlations between daily NEE, R_eco, GPP, and precipitation varied across years and seasons. Due to warming and humidification in northwest China, precipitation events will have a greater impact on the carbon sequestration capacity of the BJD. The results are vital for predicting the possible effects of climate change on the carbon cycle.

An ankylosing spondylitis risk variant alters osteoclast differentiation

OBJECTIVE

To explore whether the variants in non-MHC proteasome gene is associated with ankylosing spondylitis and explain the role of the variant in the disease.

METHODS

Case-control analysis to identify ankylosing spondylitis predisposition genes; dual-luciferase reporter assay, immunoblot analysis and osteoclastogenesis assays to detect the function of the positive variant. Affected individuals was diagnosed according to the modified New York Criteria by at least two experienced rheumatologists, and rechecked by another rheumatologist.

RESULTS

The study included 1037 AS patients and 1014 no rheumatic and arthritis disease controls. The main age of AS onset is between 16 and 35 years old. HLA-B27-positive subjects comprised 90.0% of patients. A nonsynonymous SNP rs12717 in proteasome gene PSMB1 significantly associated with ankylosing spondylitis. Individuals with CC genotype had a higher onset risk compared with those with GG/GC genotypes (OR = 1.89, p= 0.0047). We also discovered that PSMB1 regulates the receptor activator of nuclear factor-κB (RANK)/RANK ligand (RANKL) signalling pathway and the disease-associated variant PSMB1-Pro11 significantly inhibits RANKL-induced NF-κB pathway in osteoclast differentiation via the degradation of IKK-β compared with PSMB1-Ala11. RANKL induced osteoclast differentiation was significantly lower in primary monocyte osteoclast precursor from individuals with genotype PSMB131C/31C compared with individuals with genotype PSMB131G/31G.

CONCLUSIONS

These results reveal a novel understanding of the bone formation and reabsorbing imbalance in AS. The new bone formation phenotype can be attributed to the inhibition of osteoclast differentiation by a more functional PSMB1 gene.

Response of net ecosystem CO2 exchange to precipitation events in the Badain Jaran Desert

It is of great significance to study the effects of precipitation events on carbon exchange in the ecosystem for an accurate understanding of the carbon cycle. However, the response of net ecosystem CO₂ exchange (NEE) in the desert to precipitation events is elusive. In this study, the NEE in response to precipitation events of varying intensities in the Badain Jaran Desert (BJD) in China was continuously monitored using the eddy covariance (EC) technique. The following results were obtained: (1) The BJD ecosystem was a net CO₂ sink throughout the study period, with NEE values of -113.4, -130.7, and -175.4 g C m^-2a^-1 in 2016, 2018, and 2019, respectively. The total precipitation yielded a higher carbon sequestration capacity in 2019 than in the other two years. In addition, the intensity, time, and frequency of precipitation had significant impacts on CO₂; (2) the threshold value of the NEE response to precipitation was ~1.4 mm, indicating the extreme sensitivity of the BJD to precipitation events; (3) the variations in the NEE response to precipitation events conformed to a dual exponential model. The analytical results of the model indicate that precipitation intensity was positively correlated with the carbon sequestration capacity of the desert. The model revealed that the greater the precipitation intensity, the longer it takes the NEE to reach the maximum, and the lengthier the duration of the residual effects. With an increase in the total precipitation and frequency of extreme precipitation events under warm and humidification climates, the carbon sequestration capacity of the BJD will likely be enhanced. The results of this study are of great significance for revealing the carbon cycle mechanism of the desert ecosystem.

Association of genetic polymorphisms of VAX1, MAFB, and NTN1 with nonsyndromic cleft lip with or without cleft palate in Chinese population

Nonsyndromic cleft lip with or without palate (NSCL/P) is a common birth defect involving genetic factors. We conducted this case-control study to verify the association of ten single-nucleotide polymorphisms (SNPs) of six genes (VAX1, MAFB, PAX7, ABCA4, NTN1, and NOG) with NSCL/P in the Chinese population. The study included 249 NSCL/P patients, 62 nonsyndromic cleft palate only (NSCPO) patients and 480 controls. Three loci, namely, VAX1 rs7078160, MAFB rs11696257, and NTN1 rs4791774, were associated with NSCL/P (Bonferroni method adjusted p values were 0.020, 0.00031, and 0.030, respectively). We also found that the disease risk of individuals carrying both VAX1 rs7078160 and NTN1 rs4791774 was higher than those carrying only one of them (p = 4.50 × 10^-4 and 6.03 × 10^-3, respectively). SNPs of genes VAX1 rs7078160, MAFB rs11696257, and NTN1 rs4791774 increased NSCL/P risk in the Chinese population.

5' UTR CGG repeat expansion in GIPC1 is associated with oculopharyngodistal myopathy

Oculopharyngodistal myopathy is a late-onset degenerative muscle disorder characterized by ptosis and weakness of the facial, pharyngeal, and distal limb muscles. A recent report suggested a non-coding trinucleotide repeat expansion in LRP12 to be associated with the disease. Here we report a genetic study in a Chinese cohort of 41 patients with the clinical diagnosis of oculopharyngodistal myopathy (21 cases from seven families and 20 sporadic cases). In a large family with 12 affected individuals, combined haplotype and linkage analysis revealed a maximum two-point logarithm of the odds (LOD) score of 3.3 in chromosomal region chr19p13.11-p13.2 and narrowed the candidate region to an interval of 4.5 Mb. Using a comprehensive strategy combining whole-exome sequencing, long-read sequencing, repeat-primed polymerase chain reaction and GC-rich polymerase chain reaction, we identified an abnormal CGG repeat expansion in the 5' UTR of the GIPC1 gene that co-segregated with disease. Overall, the repeat expansion in GIPC1 was identified in 51.9% independent pedigrees (4/7 families and 10/20 sporadic cases), while the repeat expansion in LRP12 was only identified in one sporadic case (3.7%) in our cohort. The number of CGG repeats was <30 in controls but >60 in affected individuals. There was a slight correlation between repeat size and the age at onset. Both repeat expansion and retraction were observed during transmission but somatic instability was not evident. These results further support that non-coding CGG repeat expansion plays an essential role in the pathogenesis of oculopharyngodistal myopathy.

A Mitochondrial DNA Variant Elevates the Risk of Gallstone Disease by Altering Mitochondrial Function

BACKGROUND AND AIMS

Gallstone disease (cholelithiasis) is a cholesterol-related metabolic disorders with strong familial predisposition. Mitochondrial DNA (mtDNA) variants accumulated during human evolution are associated with some metabolic disorders related to modified mitochondrial function. The mechanistic links between mtDNA variants and gallstone formation need further exploration.

METHODS

In this study, we explored the possible associations of mtDNA variants with gallstone disease by comparing 104 probands and 300 controls in a Chinese population. We constructed corresponding cybrids using trans-mitochondrial technology to investigate the underlying mechanisms of these associations. Mitochondrial respiratory chain complex activity and function and cholesterol metabolism were assessed in the trans-mitochondrial cell models.

RESULTS

Here, we found a significant association of mtDNA 827A>G with an increased risk of familial gallstone disease in a Chinese population (odds ratio [OR]: 4.5, 95% confidence interval [CI]: 2.1-9.4, P=1.2×10-4). Compared with 827A cybrids (haplogroups B4a and B4c), 827G cybrids (haplogroups B4b and B4d) had impaired mitochondrial respiratory chain complex activity and function and activated JNK and AMPK signaling pathways. Additionally, the 827G cybrids showed disturbances in cholesterol transport and accelerated development of gallstones. Specifically, cholesterol transport through the transporter ABCG5/8 was increased via activation of the AMPK signaling pathway in 827G cybrids.

CONCLUSIONS

Our findings reveal that mtDNA 827A>G induces aberrant mitochondrial function and abnormal cholesterol transport, resulting in increased occurrence of gallstones. The results provide an important biological basis for the clinical diagnosis and prevention of gallstone disease in the future.

Genomic and Transcriptomic Landscape of Triple-Negative Breast Cancers: Subtypes and Treatment Strategies

We comprehensively analyzed clinical, genomic, and transcriptomic data of a cohort of 465 primary triple-negative breast cancer (TNBC). PIK3CA mutations and copy-number gains of chromosome 22q11 were more frequent in our Chinese cohort than in The Cancer Genome Atlas. We classified TNBCs into four transcriptome-based subtypes: (1) luminal androgen receptor (LAR), (2) immunomodulatory, (3) basal-like immune-suppressed, and (4) mesenchymal-like. Putative therapeutic targets or biomarkers were identified among each subtype. Importantly, the LAR subtype showed more ERBB2 somatic mutations, infrequent mutational signature 3 and frequent CDKN2A loss. The comprehensive profile of TNBCs provided here will serve as a reference to further advance the understanding and precision treatment of TNBC.

PSMB1 Negatively Regulates the Innate Antiviral Immunity by Facilitating Degradation of IKK-ε

Proteasome is a large protein complex, which degrades most intracellular proteins. It regulates numerous cellular processes, including the removal of misfolded or unfolded proteins, cell cycle control, and regulation of apoptosis. However, the function of proteasome subunits in viral immunity has not been well characterized. In this study, we identified PSMB1, a member of the proteasome β subunits (PSMB) family, as a negative regulator of innate immune responses during viral infection. Knockdown of PSMB1 enhanced the RNA virus-induced cytokine and chemokine production. Overexpression of PSMB1 abolished virus-induced activation of the interferon-stimulated response element (ISRE) and interferon beta (IFNβ) promoters. Mechanistically, PSMB1 inhibited the activation of RIG-I-like receptor (RLR) and Toll-like receptor 3 (TLR3) signaling pathways. PSMB1 was induced after viral infection and its interaction with IKK-ε promoted degradation of IKK-ε through the ubiquitin-proteasome system. Collectively, our study demonstrates PSMB1 is an important regulator of innate immune signaling.

Common MIR146A Polymorphisms in Chinese Ankylosing Spondylitis Subjects and Controls

Common polymorphisms of microRNA gene MIR146A were reported as associated with different autoimmune diseases, include systemic lupus erythematosus, psoriatic arthritis, asthma and ankylosing spondylitis. In this study we investigated MIR146A SNPs in Chinese people with ankylosing spondylitis. Three common SNPs: rs2910164, rs2431697 and rs57095329 were selected and genotyped in 611 patients and 617 controls. We found no association between these SNPs and ankylosing spondylitis in our samples.

Particle-vibration coupling effect on the β decay of magic nuclei

Nuclear β decay in magic nuclei is investigated, taking into account the coupling between particles and collective vibrations, on top of self-consistent random phase approximation calculations based on Skyrme density functionals. The low-lying Gamow-Teller strength is shifted downwards and at times becomes fragmented; as a consequence, the β-decay half-lives are reduced due to the increase of the phase space available for the decay. In some cases, this leads to a very good agreement between theoretical and experimental lifetimes: this happens, in particular, in the case of the Skyrme force SkM* that can also reproduce the line shape of the high-energy Gamow-Teller resonance as was previously shown.

Characteristics of demyelinating Charcot-Marie-Tooth disease with concurrent diabetes mellitus

PURPOSE

Charcot-Marie-Tooth disease (CMT) is the most common type of inherited peripheral neuropathy and has a high degree of genetic heterogeneity. CMT with concurrent diabetes mellitus (DM) is rare. The purpose of this study is to explore the genetic, clinical and pathological characteristics of the patients with CMT and concurrent DM.

METHODS

We investigated gene mutations (the peripheral myelin protein 22 gene, myelin protein zero gene, lipopolysaccharide-induced tumor necrosis factor-α factor gene, early growth response gene and the neurofilament light chain gene loci) of a relatively large and typical Chinese family with CMT1 and concurrent DM2. From the literature, we also retrieved all reported families and single cases with CMT and concurrent DM. We comprehensively analyzed the characteristics of total 33 patients with CMT and concurrent DM, and further compared these characteristics with those of patients of diabetic peripheral neuropathy (DPN).

RESULTS

Patients with CMT and concurrent DM had some relatively independent characteristics and pathogenic mechanisms. So we designated that kind of characteristic demyelinating CMT which accompanies DM as Yu-Xie syndrome (YXS), a new specific clinical subtype of CMT.

CONCLUSION

CMT is an etiologic factor of DM, even though the intrinsic association between CMT and DM still remains further exploration.

[Angiotensin(1-7) attenuates left ventricular dysfunction and myocardial apoptosis on rat model of adriamycin-induced dilated cardiomyopathy]

OBJECTIVE

To investigate the effect of Angiotensin(1-7) [Ang(1-7)] on left ventricular dysfunction and myocardial apoptosis on rat model of adriamycin-induced dilated cardiomyopathy (ADR-DCM).

METHODS

Weight-matched adult male Wistar rats were randomly divided into 3 groups: (1) the ADR-DCM group (n = 25), in which 2.5 mg/kg of ADR was weekly intravenously injected for 10 weeks. (2) Ang(1-7) group (n = 25), in which ADR rats were simultaneously treated with angiotensin-(1-7) (24 µg×kg(-1)×h(-1), ip.) for 12 weeks. (3) normal control group (n = 10). Hemodynamics and echocardiography examination were performed at 12 weeks. The malondialdehyde (MDA) was measured by TBA methods. The plasma concentration of AngII was determined by immunoradiometric assay. The pathological change was analyzed by histological hematoxylin-eosin staining. Myocardial apoptosis was assessed by TUNEL method. The protein expression of pro-apoptotic protein caspase-3, Bax and anti-apoptotic protein Bcl-xl in cardiomyocytes were detected by Western blot.

RESULTS

Mortality was significantly lower in Ang(1-7) group than in ADR-DCM group (16% vs. 40%, P < 0.01). Compared to the control group, left ventricular end-diastolic diameter (LVEDD), left ventricular end systolic diameter (LVESD) and left ventricular end-diastolic pressure (LVEDP) were significantly increased in ADR-DCM group (all P < 0.01) while fractional shorting (FS), +dp/dtmax and -dp/dtmax were significantly reduced in ADR-DCM group (all P < 0.01). LVEDD, LVESD and LVEDP were significantly reduced while FS, +dp/dtmax and -dp/dtmax were significantly higher in Ang(1-7) group compared to the ADR-DCM group, but still higher than the control group (all P < 0.01). The concentrations of AngII and MDA were higher in the ADR-DCM group than in the control group (P < 0.01), which were significantly reduced by Ang(1-7) treatment (P < 0.01). The TUNEL-positive cells and apoptosis index, the expression of pro-apoptotic protein caspase-3 and Bax were significantly higher while the expression of anti-apoptotic protein Bcl-xl was significantly lower in the ADR-DCM group than in the control group (all P < 0.01) which could all be partially reversed by Ang(1-7) treatment (all P < 0.01).

CONCLUSION

Ang(1-7) could significantly attenuate left ventricular dysfunction and myocardial apoptosis in this model by downregulating pro-apoptotic protein caspase-3 and Bax and upregulating anti-apoptotic protein Bcl-xl expression.

[Association of single nucleotide polymorphism in human CYP8B1 gene with gallstone disease]

OBJECTIVE

To identify the single nucleotide polymorphisms of human CYP8B1gene and explore the association of some of these SNPs with gallstone disease in Chinese population.

METHODS

The exon and part of promoter were sequenced by a fluorescent labeling automatic method to identify and characterize the SNPs in Chinese population. For SNPs with an allelic frequency of over 10%, a case-control study was performed in patients and controls.

RESULTS

Eleven SNPs were found within a 5119 bp region. Among them, 1 was in coding region, 5 in promoter and 5 in 3'-UTR. There were 3 novel SNPs and 12 SNPs in SNP database were not found. The allelic frequency of rs3732860 polymorphism showed a significant difference (P = 0.022) in the association study. The subjects with A allele had a significantly lower frequency of gallstone disease than those with G allele (OR = 1.465, 95%CI 1.055 - 2.034, P = 0.023).

CONCLUSION

SNP rs3732860 of CYP8B1 gene is associated with gallstone disease in Chinese population. And A allele may play a protective role in the pathogenesis of gallstone.

A mutation in SART3 gene in a Chinese pedigree with disseminated superficial actinic porokeratosis

BACKGROUND

Disseminated superficial actinic porokeratosis (DSAP) is an uncommon autosomal dominant chronic disorder of keratinization, characterized by multiple superficial keratotic lesions surrounded by a slightly raised keratotic border. Thus far, although two loci for DSAP have been identified, and the genetic basis and pathogenesis of this disorder have not been elucidated.

OBJECTIVES

To determine the locus of DSAP and identify the candidate gene(s) of the disease.

METHODS

Genome-wide scan and linkage analysis were performed in a six-generation Chinese family with DSAP. The coding exons of the candidate genes were sequenced to analyse and detect the nucleotide variations.

RESULTS

Linkage analysis showed that the maximum two-point lod score of 5.56 was obtained with the marker D12S79 at a recombination fraction theta of 0.00. Haplotype analysis defined the critical region for DSAP between D12S330 and D12S1612 on 12q24.1-24.2. By sequence analysis, we found a Val591Met mutation in SART3 in all affected individuals of the family.

CONCLUSION

SART3 is a candidate gene for DSAP, and is possibly involved in the pathogenesis of DSAP.

Fine mapping and identification of a candidate geneSSH1 in disseminated superficial actinic porokeratosis

Disseminated superficial actinic porokeratosis (DSAP) is an uncommon autosomal dominant chronic keratinization disorder, characterized by multiple superficial keratotic lesions surrounded by a slightly raised keratotic border. Thus far, although two loci for DSAP have been identified, the genetic basis and pathogenesis of this disorder have not been elucidated yet. In this study, we performed a genome-wide linkage analysis in three Chinese affected families and localized the gene in an 8.0 cM interval defined by D12S330 and D12S354 on chromosome 12. Upon screening 30 candidate genes, we identified a missense mutation, p.Ser63Asn in SSH1 in one family, a frameshift mutation, p.Ser19CysfsX24 in an alternative variant (isoform f) of SSH1 in another family, and a frameshift mutation, p.Pro27ProfsX54 in the same alternative variant in one non-familial case with DSAP. SSH1 encodes a phosphatase that plays a pivotal role in actin dynamics. Our data suggested that cytoskeleton disorganization in epidermal cells is likely associated with the pathogenesis of DSAP.