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<front>
<journal-meta>
<journal-id journal-id-type="publisher-id">Front. Immunol.</journal-id>
<journal-title>Frontiers in Immunology</journal-title>
<abbrev-journal-title abbrev-type="pubmed">Front. Immunol.</abbrev-journal-title>
<issn pub-type="epub">1664-3224</issn>
<publisher>
<publisher-name>Frontiers Media S.A.</publisher-name>
</publisher>
</journal-meta>
<article-meta>
<article-id pub-id-type="doi">10.3389/fimmu.2022.864920</article-id>
<article-categories>
<subj-group subj-group-type="heading">
<subject>Immunology</subject>
<subj-group>
<subject>Original Research</subject>
</subj-group>
</subj-group>
</article-categories>
<title-group>
<article-title>Abnormal Changes of Monocyte Subsets in Patients With Sj&#xf6;gren&#x2019;s Syndrome</article-title>
</title-group>
<contrib-group>
<contrib contrib-type="author">
<name>
<surname>He</surname><given-names>Yan</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup></xref>
<xref ref-type="aff" rid="aff2"><sup>2</sup></xref>
<xref ref-type="author-notes" rid="fn003"><sup>&#x2020;</sup></xref>
<uri xlink:href="https://loop.frontiersin.org/people/1112323"/>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Chen</surname><given-names>Rongjuan</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup></xref>
<xref ref-type="aff" rid="aff2"><sup>2</sup></xref>
<xref ref-type="author-notes" rid="fn003"><sup>&#x2020;</sup></xref>
<uri xlink:href="https://loop.frontiersin.org/people/1692353"/>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Zhang</surname><given-names>Mengqin</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup></xref>
<xref ref-type="aff" rid="aff2"><sup>2</sup></xref>
<uri xlink:href="https://loop.frontiersin.org/people/1692361"/>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Wang</surname><given-names>Bin</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup></xref>
<xref ref-type="aff" rid="aff2"><sup>2</sup></xref>
<uri xlink:href="https://loop.frontiersin.org/people/950116"/>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Liao</surname><given-names>Zhangdi</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup></xref>
<xref ref-type="aff" rid="aff2"><sup>2</sup></xref>
<uri xlink:href="https://loop.frontiersin.org/people/1692473"/>
</contrib>
<contrib contrib-type="author" corresp="yes">
<name>
<surname>Shi</surname><given-names>Guixiu</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup></xref>
<xref ref-type="aff" rid="aff2"><sup>2</sup></xref>
<xref ref-type="author-notes" rid="fn001"><sup>*</sup></xref>
<uri xlink:href="https://loop.frontiersin.org/people/473638"/>
</contrib>
<contrib contrib-type="author" corresp="yes">
<name>
<surname>Li</surname><given-names>Yan</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup></xref>
<xref ref-type="aff" rid="aff2"><sup>2</sup></xref>
<xref ref-type="author-notes" rid="fn001"><sup>*</sup></xref>
<uri xlink:href="https://loop.frontiersin.org/people/482287"/>
</contrib>
</contrib-group>
<aff id="aff1"><sup>1</sup><institution>Department of Rheumatology and Clinical Immunology, The First Affiliated Hospital of Xiamen University, School of Medicine, Xiamen University</institution>, <addr-line>Xiamen</addr-line>, <country>China</country></aff>
<aff id="aff2"><sup>2</sup><institution>Xiamen Key Laboratory of Rheumatology and Clinical Immunology, Xiamen Science and Technology Bureau</institution>, <addr-line>Xiamen</addr-line>, <country>China</country></aff>
<author-notes>
<fn fn-type="edited-by">
<p>Edited by: Naoki Iwamoto, Nagasaki University Hospital, Japan</p>
</fn>
<fn fn-type="edited-by">
<p>Reviewed by: Sandra Pasoto, Universidade de S&#xe3;o Paulo, Brazil; Guo-Min Deng, Huazhong University of Science and Technology, China</p>
</fn>
<fn fn-type="corresp" id="fn001">
<p>*Correspondence: Guixiu Shi, <email xlink:href="mailto:gshi@xmu.edu.cn">gshi@xmu.edu.cn</email>; Yan Li, <email xlink:href="mailto:Liy010203@163.com">Liy010203@163.com</email>
</p>
</fn>
<fn fn-type="equal" id="fn003">
<p>&#x2020;These authors have contributed equally to this work</p>
</fn>
<fn fn-type="other" id="fn002">
<p>This article was submitted to Autoimmune and Autoinflammatory Disorders, a section of the journal Frontiers in Immunology</p>
</fn>
</author-notes>
<pub-date pub-type="epub">
<day>04</day>
<month>03</month>
<year>2022</year>
</pub-date>
<pub-date pub-type="collection">
<year>2022</year>
</pub-date>
<volume>13</volume>
<elocation-id>864920</elocation-id>
<history>
<date date-type="received">
<day>29</day>
<month>01</month>
<year>2022</year>
</date>
<date date-type="accepted">
<day>16</day>
<month>02</month>
<year>2022</year>
</date>
</history>
<permissions>
<copyright-statement>Copyright &#xa9; 2022 He, Chen, Zhang, Wang, Liao, Shi and Li</copyright-statement>
<copyright-year>2022</copyright-year>
<copyright-holder>He, Chen, Zhang, Wang, Liao, Shi and Li</copyright-holder>
<license xlink:href="http://creativecommons.org/licenses/by/4.0/">
<p>This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.</p>
</license>
</permissions>
<abstract>
<sec>
<title>Background</title>
<p>Recent studies have proven the existence of distinct monocyte subsets, which play a significant role in the development of some rheumatic diseases such as systemic lupus erythematosus (SLE). This study was performed to define the changes of monocyte subsets in patients with Sj&#xf6;gren&#x2019;s Syndrome (SjS).</p>
</sec>
<sec>
<title>Methods</title>
<p>Single cell RNA-sequencing (scRNA-seq) data of monocytes from SjS patients and controls were analyzed. The transcriptomic changes in monocyte subsets between SjS and controls were identified and potential key functional pathways involved in SjS development were also explored.</p>
</sec>
<sec>
<title>Results</title>
<p>A total of 11 monocyte subsets were identified in the scRNA-seq analyses of monocytes. A new monocyte subset characterized by higher expression of VNN2 (GPI-80) and S100A12 (Monocyte cluster 3) was identified, and it was increased in SjS patients. Compared with controls, almost all monocyte subsets from SjS patients had increased expression of TNFSF10 (TRAIL). Moreover, interferon (IFN)-related and neutrophil activation-associated pathways were main up-regulated pathways in the monocytes of SjS patients.</p>
</sec>
<sec>
<title>Conclusion</title>
<p>This study uncovered the abnormal changes in monocyte subsets and their transcriptomic changes in SjS patients, and identified TNFSF10 <sup>high/+</sup> monocytes as a potential key player in SjS pathogenesis and a promising target for SjS treatment.</p>
</sec>
</abstract>
<kwd-group>
<kwd>Sj&#xf6;gren&#x2019;s syndrome</kwd>
<kwd>monocyte subsets</kwd>
<kwd>single cell RNA-sequencing</kwd>
<kwd>pathogenesis</kwd>
<kwd>transcriptomic analyses</kwd>
</kwd-group>
<contract-num rid="cn001">82171779</contract-num>
<contract-num rid="cn002">2021GGB025</contract-num>
<contract-sponsor id="cn001">National Natural Science Foundation of China<named-content content-type="fundref-id">10.13039/501100001809</named-content>
</contract-sponsor>
<contract-sponsor id="cn002">Fujian Provincial Health Commission<named-content content-type="fundref-id">10.13039/501100014125</named-content>
</contract-sponsor>
<counts>
<fig-count count="4"/>
<table-count count="0"/>
<equation-count count="0"/>
<ref-count count="64"/>
<page-count count="9"/>
<word-count count="3411"/>
</counts>
</article-meta>
</front>
<body>
<sec id="s1" sec-type="intro">
<title>Introduction</title>
<p>SjS is a complex rheumatic disease characterized by the infiltration of immune cells into exocrine glands such as salivary glands, and effective targeted therapies for SjS are still lacking (<xref ref-type="bibr" rid="B1">1</xref>, <xref ref-type="bibr" rid="B2">2</xref>). Current studies suggest that some factors such as disease susceptibility genes, immune abnormalities, and viral infections are synergistically involved in its pathogenesis of SjS (<xref ref-type="bibr" rid="B3">3</xref>&#x2013;<xref ref-type="bibr" rid="B5">5</xref>). Among those factors, abnormal immune factors such as B cell hyperactivity have been considered as key players in SjS pathogenesis and potential targets for SjS treatment (<xref ref-type="bibr" rid="B6">6</xref>, <xref ref-type="bibr" rid="B7">7</xref>). Nevertheless, the immune mechanisms involved in SjS pathogenesis and progression have not been fully clarified. To reveal potential targets of immunotherapy, it is necessary to further study the immune cell subsets that play a critical pathogenic role in SjS.</p>
<p>Mononuclear phagocytes (MNPs) are the most common innate immune cells with key roles in both immunity and autoimmunity (<xref ref-type="bibr" rid="B8">8</xref>&#x2013;<xref ref-type="bibr" rid="B11">11</xref>). MNPs in blood are mainly composed of monocytes and dendritic cells (DCs), both of which have heterogenerous subsets with distinct phenotypes (<xref ref-type="bibr" rid="B12">12</xref>, <xref ref-type="bibr" rid="B13">13</xref>). Recent studies using scRNA-seq have demonstrated the existence of distinct monocyte subsets and they have crucial roles in the development of some rheumatic diseases such as SLE (<xref ref-type="bibr" rid="B14">14</xref>, <xref ref-type="bibr" rid="B15">15</xref>). For instance, monocytes can participate in the pathogenesis of SLE by immune mechanisms such as secreting pro-inflammatory cytokines and assisting in the activation of B cells and T cells (<xref ref-type="bibr" rid="B16">16</xref>&#x2013;<xref ref-type="bibr" rid="B19">19</xref>). In recent years, the roles of monocytes in the pathogenesis of SjS have also gained increased attentions, and some studies have proved possible key roles of monocytes in the development and progression of SjS (<xref ref-type="bibr" rid="B20">20</xref>&#x2013;<xref ref-type="bibr" rid="B24">24</xref>). However, the mechanisms of monocytes in SjS have not been fully clarified, and further research is required. At present, there is a lack of relevant research exploring the changes of monocyte subsets in SjS patients <italic>via</italic> scRNA-seq. This study aimed to analyze the abnormal changes of monocyte subsets in peripheral blood of SjS patients by scRNA-seq data, and further explore the key transcriptomic changes in monocytes of SjS patients.</p>
</sec>
<sec id="s2" sec-type="materials|methods">
<title>Materials and Methods</title>
<sec id="s2_1">
<title>Transcriptomic Data of Monocytes of SjS Patients</title>
<p>scRNA-seq data of monocytes from SjS patients and controls in GSE157278 from Gene Expression Omnibus (GEO) were used in our study. In GSE157278, peripheral blood mononuclear cells (PBMCs) from 5 SjS patients and 5 controls were analyzed by scRNA-seq, but this study did not analyze the abnormal changes of monocyte subsets in peripheral blood of SjS patients by scRNA-seq analyses. In addition, a sample with low quality of sequencing was further excluded. Therefore, we analyzed scRNA-seq data of monocytes from 5 SjS patients and 4 controls. This study was conducted in accordance with the Declaration of Helsinski and was approved by the Ethics Committee of our hospital.</p>
<p>To further explore the transcriptomic changes in monocytes of SjS patients, we further analyzed bulk RNA-sequencing (RNA-seq) data of monocytes of SjS patients in GSE173670. In GSE173670, RNA-sequencing of CD14<sup>+</sup> monocytes from SjS patients and controls was carried out. We analyzed the transcriptomic changes in monocytes of 12 SjS patients and 11 healthy controls.</p>
</sec>
<sec id="s2_2">
<title>scRNA-Seq Analyses</title>
<p>scRNA-seq analyses were performing using Seurat (Version 3.0) and SingleR (<xref ref-type="bibr" rid="B25">25</xref>, <xref ref-type="bibr" rid="B26">26</xref>). Quality control was performed mainly by the amount of feature genes and the percentage of mitochondrial genes expression. To characterize the subsets of monocytes precisely, scRNA-seq data with high quality were analyzed. Cells with detected genes above 1000 and the percentage of mitochondrial genes less than 10% were regarded as cells with high quality. Cells were omitted if they were more than 10% in the percentage of mitochondrial genes expression. Monocytes in each sample were identified by SingleR and dentritic cells were filtered (<xref ref-type="bibr" rid="B25">25</xref>), in which up to 15 principal components (PCs) were used in the clustering of cells. Gene counts were normalized with SCTransform function of Seurat. Intergraded data from 5 SjS patients and 4 controls were clustered with 9 PCs in combination with the dimensional reduction method of uniform manifold approximation and projection (UMAP) or t-Distributed Stochastic Neighbor embedding (t-SNE). Cell type annotation was performed with SingleR and those cells annotated to be monocytes were extracted for subsequent analyses. Feature genes of monocyte subsets were calculated through the differential expression analyses in Seurat.</p>
</sec>
<sec id="s2_3">
<title>Differential Expression Analyses</title>
<p>In the analyses of RNA-seq transcriptome datasets, gene expression analyses with raw count were first used if available, and differential expression analyses were performed with DESeq2 (<xref ref-type="bibr" rid="B27">27</xref>). For RNA-seq transcriptome datasets in other data forms such as FPKM (Fragments Per Kilobase Million) or TPM (Transcripts Per Million), differential expression analyses were performed with limma package (<xref ref-type="bibr" rid="B28">28</xref>). In the differential gene expression analyses above, outcome lists of differentially expressed genes (DEGs) were obtained for subsequent analyses. Those genes with the log2 value of fold changes (log2FC) no less than 1 and adjusted P values less than 0.05 were deemed to be DEGs. In scRNA-seq analyses, DEGs of monocyte subsets between SjS patients and controls were calculated through the differential expression analyses in Seurat.</p>
</sec>
<sec id="s2_4">
<title>Enrichment Analyses of DEGs</title>
<p>Functional annotation of the DEGs was performed with clusterProfiler (<xref ref-type="bibr" rid="B29">29</xref>), and gene sets of gene ontology (GO) terms and hallmark gene sets were mainly analyzed in the functional enrichment analyses. Genes sets with an adjusted P values less than 0.05 were considered as significantly enriched pathways.</p>
</sec>
<sec id="s2_5">
<title>Expression of Key Genes in SjS Patients</title>
<p>The aberrant expression of potential key genes in the monocytes of patients was validated with the transcriptomic data from 12 SjS patients and 11 healthy controls in GSE173670. The expression levels of potential key genes were extracted, and difference between SjS patients and controls was then analyzed.</p>
</sec>
<sec id="s2_6">
<title>Statistical Analyses</title>
<p>Results were shown as mean or median with 95% confidence intervals (95%CI). The difference in the expression levels of potential key genes between SjS cases and controls was analyzed with the unpaired t test. R software (Version 3.6.1) and GraphPad Prism (Version 8) were used in data analyses and P&lt;0.05 suggested statistically significant difference. An online software (<uri xlink:href="http://www.openepi.com/">http://www.openepi.com/</uri>) was used in the power calculation. As the expression values in the transcriptomic data of GSE173670 had been standardized and inter-sample variability was small, the pre-defined standard deviation was 0.85. For a gene with a difference of 1.0 in the expression level, a sufficient power over 80% needed a combined set of 12 cases and 12 controls. In the <italic>post-hoc</italic> power analyses, the power of detecting a statistical significant difference in TNFSF10 (TRAIL) expression level between cases and controls was 95.5%.</p>
</sec>
</sec>
<sec id="s3" sec-type="results">
<title>Results</title>
<sec id="s3_1">
<title>scRNA-Seq Analyses Revealed Changes in Monocyte Subsets Among SjS Patients</title>
<p>In the scRNA-seq analyses of monocytes of SjS patients, a total of 11 monocyte subsets were identified (Cluster 0 to Cluster 10; shown as C0 to C10 in <xref ref-type="fig" rid="f1"><bold>Figure&#xa0;1</bold></xref>). A new monocyte subset characterized by higher expression of VNN2 (GPI-80) and S100A12 (Monocyte cluster 3, C3) was identified, and it was increased in SjS patients (<xref ref-type="fig" rid="f1"><bold>Figures&#xa0;1B, C</bold></xref>). However, owing to the limited samples in current study, the feature genes of monocyte subsets were not highly specific, and were also expressed in other subsets (<xref ref-type="fig" rid="f1"><bold>Figure&#xa0;1D</bold></xref>). The changes in monocyte subsets among SjS patients still need to be explored by scRNA-seq analyses of larger number of samples.</p>
<fig id="f1" position="float">
<label>Figure&#xa0;1</label>
<caption>
<p>Identification of monocyte subsets among SjS patients <italic>via</italic> scRNA-seq transcriptome analyses. <bold>(A)</bold>, Visualization of the distribution of monocytes between SjS patients and controls <italic>via</italic> the UMAP dimension reduction method. <bold>(B)</bold>, Visualization of clusters of monocytes between SjS patients and controls <italic>via</italic> the UMAP dimension reduction method. <bold>(C)</bold>, Comparison of the percentages of monocyte clusters between SjS patients and controls. <bold>(D)</bold>, Dot plot shows the expression percentages and the expression levels of feature genes of different clusters of monocytes.</p>
</caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fimmu-13-864920-g001.tif"/>
</fig>
</sec>
<sec id="s3_2">
<title>Transcriptomic Changes in Monocytes of SjS Patients</title>
<p>Through scRNA-seq transcriptome analyses, a number of significant DEGs in monocyte subsets of SjS patients were identified, such as TMEM176B, TMEM176A, HLA-DRB5, FOS, TXNIP, ARPC1B, GRN, FGL2, SAMHD1, CEBPD, CTSZ, HLA-DQB1, SNX17, TNFSF10, WASF2, ATP5A1, ZFP36L2 and CORO1A (<xref ref-type="fig" rid="f2"><bold>Figures&#xa0;2A, B</bold></xref>). Some of those significant DEGs above such as HLA-DRB5 and TNFSF10 have been proved to be key players in the pathogeneses of many autoimmune or rheumatic diseases. Enrichment analyses of those significant DEGs identified neutrophil activation-associated pathways and IFN-related pathways as the main up-regulated pathways in the monocytes of SjS patients, (<xref ref-type="fig" rid="f2"><bold>Figures&#xa0;2C, D</bold></xref>) suggesting that those pathways had the vital roles in SjS pathogenesis.</p>
<fig id="f2" position="float">
<label>Figure&#xa0;2</label>
<caption>
<p>Identification of transcriptomic changes in monocyte subsets of SjS patients <italic>via</italic> scRNA-seq transcriptome analyses. <bold>(A)</bold>, Heatmap shows the expression changes of key genes in those monocyte subsets between SjS patients and controls. <bold>(B)</bold>, Dot plot shows the expression percentages and the expression levels of key DEGs of monocyte subsets between SjS patients and controls. <bold>(C)</bold>, Main enriched GO pathways of those significant DEGs identified in scRNA-seq transcriptome analyses <italic>via</italic> clusterProfiler. <bold>(D)</bold>, Main enriched Hallmark pathways of those significant DEGs identified in scRNA-seq transcriptome analyses <italic>via</italic> clusterProfiler.</p>
</caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fimmu-13-864920-g002.tif"/>
</fig>
<p>Bulk transcriptome analyses of monocytes identified a number of significant genes aberrantly expressed in the monocytes of SjS patients such as TRIM22, MX2, MS4A4A, IFI44, IFIT2, STAT2, SAMD9L, STAT1, EPSTI1, IFI44L, SIGLEC1, TNFSF10, CX3CR1 and ISG15 (<xref ref-type="fig" rid="f3"><bold>Figure&#xa0;3A</bold></xref>). Enrichment analyses of those significant DEGs suggested that those genes were enriched in the pathways such as virus infection-associated and IFN-related pathways (<xref ref-type="fig" rid="f3"><bold>Figures&#xa0;3B, C</bold></xref>), indicating that those pathways played a key role in the pathogenesis of SjS.</p>
<fig id="f3" position="float">
<label>Figure&#xa0;3</label>
<caption>
<p>Bulk transcriptome analyses of monocytes identify key genes and functional pathways involved in SjS. <bold>(A)</bold>, Top DEGs in the bulk transcriptome analyses of monocytes from SjS patients. <bold>(B)</bold>, Main enriched GO pathways of those significant DEGs <italic>via</italic> clusterProfiler. <bold>(C)</bold>, Main enriched Hallmark pathways of those significant DEGs <italic>via</italic> clusterProfiler.</p>
</caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fimmu-13-864920-g003.tif"/>
</fig>
</sec>
<sec id="s3_3">
<title>Increased Expression of TNFSF10 (TRAIL) in the Monocytes of SjS Patients</title>
<p>Among those significant DEGs, the increased expression of TNFSF10 (TRAIL) in the monocytes of SjS patients was identified by both scRNA-seq transcriptome analyses (<xref ref-type="fig" rid="f2"><bold>Figure&#xa0;2B</bold></xref>) and bulk transcriptome analyses of monocytes (<xref ref-type="fig" rid="f3"><bold>Figure&#xa0;3A</bold></xref>). As shown in <xref ref-type="fig" rid="f4"><bold>Figures&#xa0;4A, B</bold></xref>, the increased expression of TNFSF10 (TRAIL) was found in most monocyte subsets of SjS patients. In addition, validation study also confirmed the increased expression of TNFSF10 (TRAIL) in monocytes of SjS patients (<xref ref-type="fig" rid="f4"><bold>Figure&#xa0;4C</bold></xref>). The outcomes above suggested TNFSF10 <sup>high/+</sup> monocytes as a potential key player in SjS pathogenesis and a promising target for SjS treatment.</p>
<fig id="f4" position="float">
<label>Figure&#xa0;4</label>
<caption>
<p>Increased expression of TNFSF10 (TRAIL) in monocytes of SjS patients. <bold>(A)</bold>, Violin plot shows the increased expression of TNFSF10 (TRAIL) in most monocyte sunsets of SjS patients in the scRNA-seq transcriptome analyses. <bold>(B)</bold>, Feature plot shows the increased expression of TNFSF10 (TRAIL) in monocytes of SjS patients in the scRNA-seq transcriptome analyses. <bold>(C)</bold>, Validation study confirms the increased expression of TNFSF10 (TRAIL) in monocytes of SjS patients.).</p>
</caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fimmu-13-864920-g004.tif"/>
</fig>
</sec>
</sec>
<sec id="s4" sec-type="discussion">
<title>Discussion</title>
<p>The roles and underlying mechanisms of monocytes in SjS development have not been fully clarified. This study analyzed the abnormal changes of monocyte subsets in SjS patients by scRNA-seq data, and further explored the key transcriptomic changes of monocytes in SjS patients. We found a new monocyte subset characterized by higher expressions of VNN2 (GPI-80) and S100A12 (Monocyte cluster 3), which was increased in SjS patients. Moreover, virus infection-associated pathways, IFN-related pathways and neutrophil activation-associated pathways were the major up-regulated pathways in the monocytes of SjS patients. Finally, compared with controls, almost all monocyte subsets from SjS patients had increased expression of TNFSF10 (TRAIL). Therefore, this study uncovered the abnormal changes in monocyte subsets and their transcriptomic changes in SjS patients, and identified TNFSF10 <sup>high/+</sup> monocytes as a potential key player in SjS pathogenesis and a promising target for SjS treatment.</p>
<p>Mononuclear phagocytes including monocytes are the main antigen presenting cells (APCs) and can initiate protective immune processes against pathogens, but they can also initiate autoimmune processes in autoimmune diseases (<xref ref-type="bibr" rid="B30">30</xref>&#x2013;<xref ref-type="bibr" rid="B32">32</xref>). Recent studies have proven the existence of distinct monocyte subsets and they have critical roles in the development of some rheumatic diseases such as SLE and rheumatoid arthritis (RA), and targeting monocytes is a potential treatment for those diseases (<xref ref-type="bibr" rid="B17">17</xref>, <xref ref-type="bibr" rid="B33">33</xref>). There are also some studies focusing on the roles of monocytes in SjS, and some have shown that aberrant changes in immunophenotypes, intracellular functional pathways and epigenetics exist in SjS patients (<xref ref-type="bibr" rid="B20">20</xref>&#x2013;<xref ref-type="bibr" rid="B24">24</xref>). Those outcomes suggest the key roles of monocytes in the development and progression of SjS, though the underlying mechanisms are largely elusive.</p>
<p>Monocytes have several subsets with functionally distinct phenotypes, and peripheral monocytes have been calcified as proinflammatory or classic monocytes (CD14<sup>++</sup>CD16<sup>&#x2212;</sup>), intermediate monocytes (CD14<sup>++</sup>CD16<sup>+</sup>) and nonclassic monocytes (CD14<sup>+</sup>CD16<sup>++</sup>) (<xref ref-type="bibr" rid="B34">34</xref>). Though many studies have explored the roles of monocytes in human diseases, findings are inconsistent in both the immunophenotypes of monocyte subsets and their functions. The development of scRNA-seq has provided new opportunities in uncovering monocyte subsets and defining their disturbances in those diseases (<xref ref-type="bibr" rid="B14">14</xref>, <xref ref-type="bibr" rid="B35">35</xref>&#x2013;<xref ref-type="bibr" rid="B37">37</xref>). In the present study, we tried to identify changes in monocyte subsets and transcriptome in SjS patients <italic>via</italic> scRNA-seq analyses. A total of 11 monocyte subsets were identified in the scRNA-seq analyses of monocytes, and a new monocyte subset characterized by higher expressions of VNN2 (GPI-80) and S100A12 (Monocyte cluster 3) was found to increase in SjS patients. However, owing to the limited samples in current study and the minimal heterogeneity among those mononuclear phagocyte subsets, the features genes of those monocyte subsets identified in our study were not highly specific. scRNA-seq transcriptome analyses with limited number of cells or samples could undoubtedly result in high difficulty in defining unique subpopulations with specific features genes. Therefore, the changes in monocyte subsets among SjS patients still need to be explored by further scRNA-seq analyses of larger number of samples. These studies may provide new perspectives in the landscape of mononuclear phagocytes and uncover the potential key pathogenic subset in SjS.</p>
<p>This study suggested that IFN-related signaling and virus infection-associated pathways were key up-regulated pathways in the monocytes of SjS patients and they were involved in SjS pathogenesis. Currently, the role of IFN-&#x3b1; pathway in SjS pathogenesis has long been clearly defined, and therapies targeting IFN-&#x3b1; may be a candidate treatment strategy for SjS (<xref ref-type="bibr" rid="B38">38</xref>&#x2013;<xref ref-type="bibr" rid="B40">40</xref>). Besides, there are some published literatures which could confirm the up-regulation of IFN-related signaling in the monocytes of SjS patients. A study by Brkic et al. reported that type I IFN inducible genes such as IFI44L, IFI44, IFIT3, LY6E and MX1 were systematically up-regulated in monocytes of SjS patients and were associated with high disease activity (<xref ref-type="bibr" rid="B41">41</xref>). Wildenberg et al. also reported that there was an upregulation of IFN-related genes such as IFI27, IFITM1, IFIT4, and IFI44 in monocytes of SiS patients (<xref ref-type="bibr" rid="B42">42</xref>). Sialic acid binding Ig like lectin 1 (Siglec-1), a biomarker of the activation of type I IFN pathway, was highly expressed in monocytes of SjS patients and was positively correlated with the EULAR Sj&#xf6;gren&#x2019;s Syndrome Disease Activity Index (ESSDAI) score (<xref ref-type="bibr" rid="B43">43</xref>). Pertovaara et al. found increased cytokine-induced STAT1 activation in monocytes of SjS patients <italic>via</italic> flow cytometry (<xref ref-type="bibr" rid="B44">44</xref>). Data from another 2 studies also supported the up-regulation of molecules related to the activation of IFN-related signaling in the monocytes of SjS patients (<xref ref-type="bibr" rid="B45">45</xref>, <xref ref-type="bibr" rid="B46">46</xref>). Therefore, there is good evidence supporting the up-regulation of IFN-related signaling in the monocytes of SjS patients.</p>
<p>Virus infection such as Epstein-Barr virus (EBV) infection has long been studied as an important environmental risk factor of SjS, but definite conclusion on its pathogenic role in SjS is still lacking (<xref ref-type="bibr" rid="B47">47</xref>&#x2013;<xref ref-type="bibr" rid="B50">50</xref>). The findings from this study support virus infection as an important player in SjS pathogenesis. However, the molecular mechanisms underlying the pathogenic roles of virus infection in SjS are still not clear, and need to be elucidated in future studies. Apart from IFN-related pathways and virus infection-associated pathways, neutrophil activation-associated pathways were also identified to be up-regulated pathways in the monocytes of SjS patients. There is accumulating evidence implicating those neutrophils as key players in the pathogeneses of autoimmune or rheumatic diseases (<xref ref-type="bibr" rid="B51">51</xref>&#x2013;<xref ref-type="bibr" rid="B53">53</xref>). The hyperactivation of neutrophils have been implicated in the pathogeneses of rheumatic diseases such as systemic lupus erythematosus (SLE) (<xref ref-type="bibr" rid="B54">54</xref>&#x2013;<xref ref-type="bibr" rid="B56">56</xref>). An early research reported that neutrophil adhesion was enhanced in SjS patients, which indicated an increased activation of neutrophils in SjS patients (<xref ref-type="bibr" rid="B57">57</xref>). The up-regulation of neutrophil activation-associated pathways in the monocytes of SjS patients suggests that a possible role of monocytes-neutrophils cross-talk in the pathogenesis of SjS. Previous studies have revealed that monocytes can mediate neutrophil activation <italic>via</italic> multiple distinct mechanisms and is involved in diseases such as SLE (<xref ref-type="bibr" rid="B58">58</xref>&#x2013;<xref ref-type="bibr" rid="B60">60</xref>). However, studies focusing on the roles of neutrophil activation or monocytes-neutrophils cross-talk in SjS are still limited, and further studies are needed.</p>
<p>Tumor Necrosis Factor-Related Apoptosis Inducing Ligand (TRAIL/TNFSF10) is a key cytokine of the TNF superfamily, and has significant roles in regulating immunity. Previous studies have identified abnormal changes in TNFSF10 (TRAIL) among patients with distinct autoimmune and rheumatic diseases such as SLE (<xref ref-type="bibr" rid="B61">61</xref>&#x2013;<xref ref-type="bibr" rid="B63">63</xref>). Another study found that TRAIL<sup>+</sup> monocytes played critical roles in lung damage (<xref ref-type="bibr" rid="B64">64</xref>). However, the roles of TNFSF10 <sup>high/+</sup> monocytes in common autoimmune and rheumatic diseases have not been clearly defined. In present study, the increased expression of TNFSF10 (TRAIL) in the monocytes of SjS patients was identified by both scRNA-seq transcriptome analyses (<xref ref-type="fig" rid="f2"><bold>Figure&#xa0;2B</bold></xref>) and bulk transcriptome analyses of monocytes (<xref ref-type="fig" rid="f3"><bold>Figure&#xa0;3A</bold></xref>). The outcomes above suggested TNFSF10 <sup>high/+</sup> monocytes as a potential key player in SjS pathogenesis and a promising target for SjS treatment. Besides, more studies exploring the roles and potential mechanisms of TNFSF10 <sup>high/+</sup> monocytes in SjS development are needed.</p>
<p>A limitation of this study was the small size of samples of SjS patients and controls especially in the scRNA-seq transcriptome analyses. In the scRNA-seq analyses, there were only 5 SjS cases and 4 controls, which could undoubtedly cause impaired statistical power in detecting differences across distinct monocyte subsets. The total number of monocytes in the scRNA-seq analyses was also limited, which could result in suboptimal analyses of monocyte subsets and their functions. Therefore, further scRNA-seq analyses with larger sample size are recommended in future studies, which may provide much deeper insights into the pathogenesis of SjS.</p>
<p>In summary, this study uncovered the abnormal changes in monocyte subsets and their transcriptomic changes in SjS patients. Both scRNA-seq and bulk RNA-seq transcriptomic analyses identified increased expression of TNFSF10 (TRAIL) in monocytes among SjS patients, suggesting TNFSF10 <sup>high/+</sup> monocytes as a potential key player in SjS pathogenesis and a promising target for SjS treatment. Further work is needed to explore the roles and underlying mechanisms of monocytes in SjS development.</p>
</sec>
<sec id="s5" sec-type="data-availability">
<title>Data Availability Statement</title>
<p>Publicly available datasets were analyzed in this study. This data can be found here: <uri xlink:href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE157278">https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE157278</uri> <uri xlink:href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE173670">https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE173670</uri>.</p>
</sec>
<sec id="s6" sec-type="ethics-statement">
<title>Ethics Statement</title>
<p>The studies involving human participants were reviewed and approved by the Ethics Committee of the First Affiliated Hospital of Xiamen University. The patients/participants provided their written informed consent to participate in this study.</p>
</sec>
<sec id="s7" sec-type="author-contributions">
<title>Author Contributions</title>
<p>YH, YL, and GS contributed to conception and design of the study. YH, RC, MZ, and BW analyzed the data. YH, BW, and ZL wrote the manuscript. RC, YL, and GS reviewed and edited the manuscript. All authors contributed to manuscript revision, read, and approved the submitted version.</p>
</sec>
<sec id="s8" sec-type="funding-information">
<title>Funding</title>
<p>This work was supported by grants from the National Natural Science Foundation of China (Grant No. 82171779) to GS, and the Fujian Provincial Health Commission (Grant No. 2021GGB025) to YL.</p>
</sec>
<sec id="s9" sec-type="COI-statement">
<title>Conflict of Interest</title>
<p>The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.</p>
</sec>
<sec id="s10" sec-type="disclaimer">
<title>Publisher&#x2019;s Note</title>
<p>All claims expressed in this article are solely those of the authors and do not necessarily represent those of their affiliated organizations, or those of the publisher, the editors and the reviewers. Any product that may be evaluated in this article, or claim that may be made by its manufacturer, is not guaranteed or endorsed by the publisher.</p>
</sec>
</body>
<back>
<ack>
<title>Acknowledgments</title>
<p>We thank GEO database for providing their platforms and contributions for uploading meaningful data sets.</p>
</ack>
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