Age-Dependent Remodeling of Splenic Immune Responses in Murine Sepsis Revealed by Single-Cell Transcriptomics

Age-Dependent Remodeling of Splenic Immune Responses in Murine Sepsis Revealed by Single-Cell Transcriptomics

Authors:
Christine Rodhouse, Dayuan Wang, Hongru Tang, Miguel Hernandez-Rios, Whitman Wiggins, Xuanxuan Yu, Leandro Balzano-Nogueira, Angel Charles, Larissa Langhi Prata, Tyler Loftus, Letitia Bible, Alicia Mohr, Robert Maile, Guoshuai Cai, Shawn Larson, Philip Efron, Jaimar Rincon

Body of Abstract:
Background: Decades of sepsis research have yet to produce an effective immune-therapeutic to improve patient outcomes. This is in part due to a failure to apply precision medicine to sepsis research, which includes accounting for the age of the host as the disease tends to affect the very young and older adults the most. Our goal is to delineate the transcriptomic patterns of leukocytes early after sepsis in key age (neonate, young adult, older adult) groups using a polymicrobial model of murine abdominal sepsis, allowing for comparisons of similarities and differences.

Methods: Neonatal (7-day-old), young adult (3-4 months), and older adult (18-24 months) C57BL/6 (B6) mice were challenged with 1.1 – 1.3 mg/g BW of cecal slurry (CS) to induce polymicrobial sepsis. Spleens were harvested prior to challenge (naive) and 18 hours post-sepsis (CS18h). Single-cell gene expression libraries were generated using the 10X Genomics platform and sequenced on an Illumina HiSeq® system (scRNAseq).  Data was processed with CellRanger and analyzed in Seurat.  Differentially expressed genes (DEGs) were identified using an adjusted Wilcoxon’s rank-sum test. IPA was used for functional enrichment, with significance assessed by Fisher’s exact test. Pseudotime trajectory analysis was inferred based on transcriptional dynamics. 

Results: Following sepsis, neonates showed expansion of HSPCs, PMNs, and mast cells; young adults exhibited reductions in HSPCs and mast cells, while older adults displayed increased DCs with otherwise stable myeloid proportions. Monocyte transcriptional responses differed markedly by age. Neonatal monocytes showed dysregulated activation and impaired maturation with induction of IL-10, Th2, TLR, LPS/IL-1, iNOS, IL-17, and IL-1 pathways and suppression of LXR/RXR and MAPK. Young adults mounted a balanced response, upregulating IL-10, IL-17, and PD-1/PD-L1 while downregulating Th1, HGF, and IL-4. Aged monocytes exhibited profound dysregulation with activation of cytokine-storm, IL-10, ID3, and sirtuin pathways and loss of PPAR/RXR, TRIM21, and communication signaling, reflecting a hyperinflammatory, metabolically compromised state. Pseudotime trajectory analysis revealed pronounced alterations suggesting perturbations in hematopoietic differentiation dynamics across the ages. In young adult mice, myeloid differentiation skewed towards inflammatory effector cells (e.g. monocytes, DCs). In contrast, in neonates and aged mice there were disrupted trajectories and reduced progression to the terminal macrophage branches, indicative of impaired myeloid maturation. 

Conclusions: scRNAseq analysis of splenic leukocytes revealed that host age results in tremendous differences in cell proportions, DEGs, and cell differentiation early after sepsis. Translation efforts in sepsis can be improved by applying precision medicine to research, including preclinical rodent sepsis models needed for FDA approval of therapies.

Comparing efficacy of preoperative antiseptic agents in preventing SSI after urgent and emergency cesarean section

Comparing efficacy of preoperative antiseptic agents in preventing SSI after urgent and emergency cesarean section

Authors:
Gabriela Cortese, Robyn Bronshtein, Alex Kaizer, Cameron Maidenberg, Stefka Fabbri, Daniel Yeh

Body of Abstract:
Background: Preoperative skin antisepsis is a well-established method of reducing rates of

postoperative surgical site infection (SSI). The aim of this descriptive study was to assess SSI

rates following emergent cesarean section (e-CS) using different preoperative skin antiseptic

agents.

Methods: This retrospective study included adults undergoing e-CS at our institution between

5/16-12/23. E-CS after trauma and in correctional care patients were excluded. Maternal

demographic information, operative characteristics, and postoperative outcomes were collected.

Two abdominal preparation types were assessed: chlorohexidine gluconate with alcohol (CHG)

for “priority 1” (decision-to-incision < 15 minutes) and povidone-iodine (PVP-I) for “priority 2” (decision-to-incision < 30 minutes). The primary outcome was SSI rate. Additional major co- variates included timeliness of preoperative antibiotics within 60 min before incision (SCIP compliance), appropriateness of antibiotics spectrum (CDC compliance), and postoperative antibiotics treatment and duration. Logistic regression models were used to estimate odds ratios between abdominal preparation types. Results: A total 665 patients were included in the study: CHG=488 (73%) and PVP-I=177 (27%) (Table). Significant differences were seen between groups regarding indication for e-CS, preoperative antibiotics administration, timeliness of preoperative antibiotics, post-operative antibiotics prescription, and duration of postoperative antibiotics. However, the overall SSI rate was 4.2% and SSI rates were not significantly different between groups (3.9% vs. 5.1%, p=.164). Adjusted logistic regression demonstrated that PVP-I vs. CHG was not associated with increased risk of SSI (OR 1.18, 95% CI 0.48-2.88, p=.712). Conclusion: The choice of preoperative skin antisepsis agent at our institution is variable and may depend upon factors such as indication for e-CS. We did not detect a meaningful difference in SSI rates between different antiseptic agents. These findings indicate that SSI rates may not be impacted by type of preoperative skin antiseptic agent.

Antibiotic Duration Beyond 24 Hours Does Not Reduce Infection in Grade 3 Open Extremity Fractures

Antibiotic Duration Beyond 24 Hours Does Not Reduce Infection in Grade 3 Open Extremity Fractures

Authors:
Andrea Gochi, Henry Olivera Perez, Anna Huang Perez, Hyunjee Kwak, Lucas Thornblade, Naveen Balan, Adam Gutierrez, Genna Beattie, Gregory Victorino, April Mendoza

Body of Abstract:
Background: Grade 3 Gustilo Anderson open extremity fractures carry a high risk of infection, yet wide variation in antibiotic duration persists. Many patients receive a prolonged (> 48 hour) antibiotic course despite limited evidence of benefit. Prior studies have demonstrated no reduction in surgical site infection (SSI) with broader antibiotic coverage in severe open fractures, and in some cases increased nephrotoxicity with longer regimens. We hypothesized that antibiotic administration beyond 24 hours  from time of injury, provides no additional protection against development of SSI in Grade 3 open extremity fractures.

Methods: A retrospective cohort study of all adult Grade 3 Gustilo Anderson open extremity fractures treated at a Level I trauma center from October 2019 to September 2025 was conducted. Clinical characteristics, antibiotic treatment data, and infectious outcomes were collected. The primary outcome was development of a SSI (superficial or deep) at the site of Grade 3 open extremity injury. The secondary outcome was need for hardware removal. Multivariable logistic regression was used to identify independent predictors of SSI, and a separate model evaluated factors associated with hardware removal.

Results: Out of 1507 Grade 1-3 open extremity fractures, a total of 216 Grade 3 open extremity fractures, met inclusion criteria. Patients with incomplete data, those who died on arrival or died within 2 weeks were excluded from analysis. The overall SSI incidence was 18.5% (40/216), including 15 superficial SSI and 25 deep SSI infections, with 43% of the cohort receiving broad coverage (Gram positive and Gram negative and/or anaerobic coverage). Infection rates did not differ between patients receiving ≤24 hours versus >24 hours of total antibiotics (20.9% vs 17.9%, p=0.649). Postoperative antibiotic duration was similarly not associated with infection and neither was coverage type (all p>0.05). No significant relationship was found between antibiotic duration and hardware removal (p>0.05).  In multivariable analysis, active smoking (OR 4.47, p=0.004), diabetes mellitus (OR 5.12, p=0.018) and need for multiple washouts (OR 3.89, p=0.013), were independently associated with SSI. In the hardware removal model, superficial SSI (OR 6.60, p=0.022) was the strongest contributor.

Conclusions: Antibiotic administration beyond 24 hours for Grade 3 Gustilo Anderson open extremity fractures provided no protective benefit against SSI or need for hardware removal. These findings support emerging evidence that prolonged antibiotic courses may not improve outcomes in severe open fractures and reinforce the need for antibiotic stewardship in the management of Grade 3 injuries.

Antibiotic Resistance in Total Joint Arthroplasty: Does the Addition of Local Antibiotics Impact the Incidence of Antibiotic Resistant Infections? A Systematic Review with a Dissection of the Lower Limb.

Antibiotic Resistance in Total Joint Arthroplasty: Does the Addition of Local Antibiotics Impact the Incidence of Antibiotic Resistant Infections? A Systematic Review with a Dissection of the Lower Limb.

Authors:
milli datta

Body of Abstract:
BACKGROUND

                   

Antibiotic resistance is a key, ongoing global health issue which challenges medicine. There is concern that the current gold-standard of care to prevent postoperative infection, systemic intravenous antibiotic prophylaxis, may promote antibiotic resistance. Localised administrations, antibiotic-loaded bone cement (ALBC) or vancomycin powder (VP), have been suggested to induce less antibiotic resistance than systemic prophylaxis alone.

                   

AIMS

                   

This systematic review aimed to establish whether the addition of VP or ALBC, to routine systemic prophylaxis, impacts the rate of antibiotic-resistant infections after total knee or hip arthroplasty procedures, using evidence from the literature.

                   

METHODS

                   

Two independent PICO searches were conducted of PubMed, EMBASE, and Cochrane Library and papers matching inclusion criteria accepted. Data on prosthetic joint infections was extracted and assessed via independent, two-tailed t-tests for statistical significance. A prosection of the lower limb was produced to display structures relevant to the systematic review and serve as an educational resource for students.

                   

RESULTS

                   

22 articles were eligible for data analysis. No significant difference was found between the rates of resistant infections when ALBC or VP were added to systemic antibiotic prophylaxis. Notably lower proportions of resistant infections were observed in cohorts where VP was administered. This is concurrent with the low rates of vancomycin resistance documented in previous literature.

                   

CONCLUSION

                   

Results suggest that the incidence of antibiotic resistance is not altered by the addition of locally administered antibiotics to systemic prophylaxis, in total joint arthroplasties. However, this review was limited by the small cohorts of postoperative infections provided by the literature. Findings demonstrate need for further experimental research in this field, specifically randomised controlled trials, to combat the ongoing antibiotic resistance crisis.

Antibiotic-induced gut dysbiosis enhances pathogen-mediated coagulopathy via shifts in quorum sensing and microbial metabolites

Antibiotic-induced gut dysbiosis enhances pathogen-mediated coagulopathy via shifts in quorum sensing and microbial metabolites

Authors:
Jessica Cao, Rebecca Meltzer, Andrew Benjamin, John Alverdy, Robert Keskey

Body of Abstract:
Background: Critically ill trauma patients are exposed to selective pressures including antibiotics that disrupt the gut microbiota, favoring expansion of Proteobacteria including pathogens like Pseudomonas aeruginosa (Pa). Intestinal dysbiosis in this setting has been linked to adverse outcomes including bleeding complications. We recently demonstrated that gut-derived Pa can induce clinically significant coagulopathy via secreted exoproducts in humans and mice. However, the extent to which Pa virulence expression–and thus its ability to drive coagulopathy–is modulated by the gut environment following antibiotic exposure remains unknown. We hypothesize that antibiotic-induced changes in the intestinal milieu (i.e. higher levels of the interspecies quorum-sensing molecule autoinducer-2 [AI-2], depletion of gut-derived metabolites) increases Pa virulence and enhances its ability to induce coagulopathy.

Methods: Pa isolated from an ICU patient was grown in tryptic soy broth (TSB) and TSB supplemented with the following: cecal metabolites from antibiotic-decontaminated mice (AbxCec); supernatant of E. Coli that constitutively expresses AI-2 (Ec-AI2), supernatant of a control E. Coli strain (Ec-Ctrl); 100 mM acetate (Ace); 10 mM butyrate (But); 10 mM propionate (Prop); 1 mM kynurenic acid (Kyn); 1 uM indole-3-propionate (IPA); and 50 mM tryptophan (Trp). Supernatant from Pa grown in each of these conditions (Pa-Sup) was collected at stationary phase at a similar optical density, filtered, and added to citrate-anticoagulated whole blood from healthy volunteers. Coagulation was analyzed using TEG6S. 

Results: Growth in TSB supplemented with AbxCec increased Pa-induced coagulopathy in a dose-dependent manner. Compared to TSB Pa-Sup, AbxCec Pa-Sup prolonged R time when added to blood at 1:15 (54.18s vs 4.64s; p<0.001) and decreased maximum amplitude (MA) at 1:20 (18.74 vs 57.76; p<0.001) and 1:15 (2.1 vs 43.46; p<0.01). Ec-AI2 Pa-Sup decreased MA to a greater extent than Ec-Ctrl Pa-sup and TSB Pa-Sup at 1:10 (7.52 vs 13.92 vs 29.8; Ec-AI2 vs Ec-Ctrl vs TSB Pa-sups; p<0.05). Ec-AI2 Pa-Sup also prolonged R time to a greater extent (31.1s vs 18.6s vs 3.88s; NS), but this was not statistically significant. Growing Pa in the presence of Ace, Kyn, IPA, and Trp suppressed Pa-Sup’s ability to decrease MA when added to blood at 1:10 (18.53 vs 59.53 vs 43.23 vs 53.2 vs 52.6; TSB vs Ace vs Kyn vs IPA vs Trp Pa-Sups; p<0.05), while growing Pa with But and Prop did not have this effect. Conclusion: By shifting the balance of quorum-sensing signals (i.e. AI-2) and gut-derived metabolites (i.e. SCFAs, Trp derivatives), antibiotics create a metabolic niche that favors Pa predominance and potentiates its virulence expression in a way that amplifies pathogen-mediated coagulopathy. This underscores the concept that antibiotic-mediated perturbations of the gut microbiota can transform commensal-pathogen dynamics and ultimately hinder recovery in critically ill patients.

Antimicrobial dressings for the prevention of surgical site infection: a systematic review and meta-analysis

Antimicrobial dressings for the prevention of surgical site infection: a systematic review and meta-analysis

Authors:
Suraya Yusuf, Jonathan James, Bryant Chong, Esmee Dohle, Luka Jovanovic, Ryckie Wade, Justin Wormald

Body of Abstract:
Background 

Surgical site infections (SSI) are a leading cause of postoperative morbidity, prolonged hospitalisation, and significant healthcare costs. Antimicrobial dressings may mitigate SSI risk by minimising local microbial burden, but their effectiveness remains uncertain.

 

Methods 

MEDLINE, EMBASE, CINAHL, and Cochrane CENTRAL were searched from inception to July 2024, supplemented by searches of clinical trial registries, grey literature, and citation chasing. Randomised controlled trials (RCTs) comparing antimicrobial dressings with any other inert dressing for closed incisional wounds following elective or emergency surgery were included. Data were extracted in duplicate, risk of bias was assessed with RoB 2, and certainty of evidence with GRADE. Pairwise random-effects meta-analyses were performed. The primary outcome was SSI within 30 days (90 days if prosthesis used); secondary outcomes included adverse events and costs.

 

Results:

Thirty-five RCTs involving 8718 participants were included. Meta-analyses were conducted for silver (21 studies, n=5504), dialkylcarbomyl chloride (DACC) (3 studies, n=892), and mupirocin (3 studies, n=1320). Compared to standard dressings, silver dressings reduced the risk of SSI by 22% (RR 0.78; CI 0.62-0.97; I²=43%; moderate-certainty evidence). DACC dressings halved the risk of SSI (RR 0.49; CI 0.29-0.83; I²=0%; moderate-certainty) compared to standard dressings. Mupirocin dressings were not associated with SSI prevention (RR 0.62; 95% CI 0.15-2.63; I²=67%; very low-certainty evidence). Evidence for other agents was insufficient.

 

Conclusion:

Silver and DACC dressings probably reduce the risk of SSI in closed surgical wounds. There is residual uncertainty over the clinical effectiveness of other antimicrobial dressings.

Appendicitis in the Transplant Patient: A Common Problem in a Less Common Patient Population

Appendicitis in the Transplant Patient: A Common Problem in a Less Common Patient Population

Authors:
Michael Megaly, Todd Costantini, Qi Wang

Body of Abstract:
Background:
Acute appendicitis is an uncommon surgical emergency among solid organ transplant (SOT) recipients and may present atypically due to immunosuppression. Comparative data with non-transplant patients remain limited. We hypothesized that SOT recipients would demonstrate blunted inflammatory responses and atypical clinical presentations.

Methods:
We performed a retrospective review of adult SOT recipients diagnosed with appendicitis within a multi-center integrated health system from January 2011 to July 2025. SOT patients were compared with a contemporaneous cohort of non-transplant patients with appendicitis. Demographics, presenting vital signs, laboratory values, perforation rates, operative versus non-operative management, and antibiotic use were assessed.

Results:
Among 4,049 SOT recipients, 58 (1.4%) developed appendicitis. Median time from transplant to diagnosis was 889 days (IQR 116–3,399). SOT recipients were older (51.9 ± 16.6 vs 41.8 ± 18.2 years, p < 0.001) and had higher rates of hypertension (74% vs 20%) and diabetes (36% vs 8%) (p < 0.001 for both). Fever (>100.4 °F) occurred in 9.4% of SOT recipients versus 17.2% of non-transplant patients (p = 0.18), and leukocytosis (>11 × 10⁹/L) in 44.8% of SOT patients vs 68.6% non-transplant patients (p < 0.01). Non-operative management was more common in SOT recipients (14% vs 3%, p = 0.0028). Perforated appendicitis occurred more frequently (17% vs 8%, p = 0.04) in SOT patients. SOT patients had longer courses of antibiotics for all appendicitis management. Median length of stay was longer (2.9 vs 1.0 days, p = 0.02) in SOT recipients while no 30-day mortality occurred in either group. Conclusions: Appendicitis in SOT recipients is rare and frequently presents with attenuated inflammatory signs and increased risk of perforation.This underscores the need for a high index of suspicion for acute appendicitis in SOT recipients even in the absence of traditional diagnostic findings.

Assessing Optimal Timing of Synthetic Electrospun Fiber Matrix Application in the Management of Infected Burn Wound.

Assessing Optimal Timing of Synthetic Electrospun Fiber Matrix Application in the Management of Infected Burn Wound.

Authors:
Arpana Jain

Body of Abstract:
Background:Burn injuries frequently present with contaminated wound environments where adjunctive therapies are essential; however, many commercially available products remain susceptible to infection. Synthetic Electrospun Fiber Matrix (SEFM) is a fully resorbable, synthetic material engineered to mimic the structure of the human Extracellular Matrix. The optimal timing of SEFM application after burn injury remains unclear, particularly in high-risk infected burn wounds. This study evaluated whether early application (<14 days) versus late application (>14 days) influenced complications and healing outcomes.

Methods:A retrospective analysis was performed on 33 patients who received application of SEFM to treat a total of 62 unique burn injury sites. The collected variables included demographics, burn size and depth, wound infection, time to skin graft, complications (bacterial infection, fungal infection, amputation, and unplanned re-operation), mortality, and length of stay. The treatment sites were grouped by application timing: Early (<14 days, n=26) and Late (>14 days, n=36). A focused subgroup analysis was conducted on wounds with known burn infection (n=17). Fisher’s Exact Test was used to determine statistical significance for complication rates (p<0.05). RESULTS:THE COHORT OF 33 PATIENTS WAS 57.6% MALE, WITH MEAN AGE OF 46.2 YEARS (22-84 YEARS). IT INCLUDED 63.6% WHITE AND 12.2% AFRICAN AMERICANS. MEAN TBSA WAS 11.9% (SD 4.4%). MOST OF THE PATIENTS HAD SINGLE APPLICATION OF SEFM (98%) AT A MEDIAN TIME TO APPLICATION OF 14 DAYS. IN THE OVERALL DATASET, THE RATE OF BACTERIAL INFECTION WAS SIGNIFICANTLY LOWER IN THE EARLY APPLICATION GROUP (0.0%) COMPARED TO THE LATE GROUP (16.7%; P = 0.0354). IN THE HIGH-RISK SUBGROUP, WHERE THE WOUNDS HAD A KNOWN INFECTION PRIOR TO SEFM APPLICATION, PATIENTS RECEIVING EARLY APPLICATION (<14 DAYS) DEMONSTRATED A LONGER MEDIAN HEALING TIME (57 DAYS VS. 26 DAYS FOR LATE APPLICATION. THE EARLY APPLICATION GROUP EXPERIENCED A 0% INCIDENCE RATE ACROSS ALL MEASURED COMPLICATIONS (INCLUDING AMPUTATION, BACTERIAL, AND FUNGAL INFECTION), WHEREAS THE LATE APPLICATION GROUP SHOWED HIGH RATES OF COMPLICATIONS (UP TO 45.5 % FOR BACTERIAL INFECTION). WHILE NOT STATISTICALLY SIGNIFICANT DUE TO THE SMALL SAMPLE SIZE, THE ZERO-COMPLICATION FINDING IN THE EARLY GROUP IS NOTABLE. CONCLUSION:THE STATISTICALLY SIGNIFICANT ASSOCIATION BETWEEN DELAYED SEFM APPLICATION (> 14 DAYS) AND INCREASED RISK OF BACTERIAL INFECTION ACROSS THE WHOLE COHORT SUGGESTS A STRONG PROTECTIVE BENEFIT OF EARLY INTERVENTION. FURTHERMORE, THE 0% COMPLICATION RATE OBSERVED IN THE HIGHLY VULNERABLE INFECTED SUBGROUP FOLLOWING EARLY APPLICATION PROVIDES COMPELLING EVIDENCE THAT WHILE EARLY TIMING MAY NOT SHORTEN THE OVERALL HEALING TIME OF A COMPLEX, INFECTED WOUND, IT APPEARS CRUCIAL FOR COMPLICATION PREVENTION AND MORBIDITY REDUCTION.

Association of Palliative Care Consultation with Resource Utilization and Infectious Outcomes in Advanced Age Surgical ICU Patients with Sepsis

Association of Palliative Care Consultation with Resource Utilization and Infectious Outcomes in Advanced Age Surgical ICU Patients with Sepsis

Authors:
Francesca Bragg, Ryan Desrochers, Daithi Heffernan, Andrew Stephen

Body of Abstract:
Background: Surgical ICU patients with sepsis often face rapidly progressive deterioration, multisystem failure requiring a high degree of supportive care, and ultimately face a high mortality. Surgeons are trained to view sepsis as a reversible condition if timely operative source control is achieved which is often in contrast to other medical conditions which are more commonly accepted as displaying a terminal, or irreversible trajectory. This mindset may delay important goals-of-care discussions when frailty, advanced age, and organ failure limit the physiologic benefit of aggressive interventions. Earlier palliative care (PC) integration may align treatment decisions with prognosis and reduce non-beneficial invasive care, but its role in septic surgical patients remains poorly defined.

Methods: We conducted a retrospective analysis of critically ill surgical patients ≥65 years with sepsis requiring a procedural intervention. Patients receiving PC consultation were compared with those without PC involvement on mortality, infection-related complications, ventilator exposure, invasive interventions, and health care utilization. Continuous data is presented as mean and standard deviation

Results: A total of 11,090 patients were included; 5,520 (50%) received PC consultation and 5,570 (50%) did not. PC patients were older (76.4+/-0.9 vs 74.6+/-0.9; p<0.001) and had higher rates of heart failure (53% vs 39%; p<0.001), COPD (35% vs 26%; p<0.001) and chronic kidney disease (45% vs 34%; p<0.001). PC patients exhibited higher mortality (60% vs 16%; RR 3.8, 95% CI 3.548-4.036; p<0.001). PC involvement was associated with significantly greater downstream infection-related complications, including pneumonia (17% vs 12%; RR 1.3, p<0.001) and bacteremia (11% vs 9%; RR 1.3, p<0.001), and significantly fewer UTI (12% vs 15%; RR 0.83, p=<0.001). PC patients underwent fewer invasive procedures (56% vs 71%; RR 0.79, p<0.001), fewer specialist consults (66% vs 68%; RR 0.97, p=0.03), fewer CT scans (42% vs 47%; RR 0.88, p<0.001), and reduced antimicrobial exposure (83% vs 88%; RR 0.95, p<0.001). Conversely, ventilator (28% vs 22%; RR 1.3, p<0.001) and vasopressor (18% vs 12%; RR 1.5, p<0.001) utilization was higher in the PC group. Conclusions: In older septic surgical ICU patients, palliative care consultation is associated with higher rates of pneumonia and bacteremia but lower rates of urinary tract infection, underscoring the complexity of downstream infection-related outcomes in this population. Palliative care involvement is associated with decreased procedural intervention while appropriately identifying those with terminal illness trajectories. These findings support normalizing and earlier integration of palliative care in sepsis management, particularly when physiologic reserve is limited, to ensure patient-centered decision making and avoid non-beneficial escalation of care.

Barriers to Clinical Translation of Microbiome Research in Surgical Site Infections: A Methodological Appraisal

Barriers to Clinical Translation of Microbiome Research in Surgical Site Infections: A Methodological Appraisal

Authors:
Divya Kewalramani, Kaustav Chattopadhyay, Tyler Loftus, Alexander Wurtz, Oluwaseun Adeyemi, Kiloni Quiles, Justin Benton, Rachel Choron, Keith Kaye, W. Evan Johsnon, Marc G. Jeschke, Lillian S. Kao, Robert G. Sawyer, Jeffrey S. Upperman, David P. Blake, John C. Alverdy, E. Patchen Dellinger, Philip S. Barie, Mayur Narayan

Body of Abstract:
Background: Most surgical site infections (SSIs) arise from endogenous microbial reservoirs, yet perioperative prevention tactics remain focused on exogenous contamination and environmental control. The specific role of various microbiomes in SSI pathogenesis is still being defined. Existing SSI–microbiome studies are mostly observational and heterogeneous in design and reporting, limiting synthesis and translation into clinical practice. We hypothesized that methodologic appraisal of SSI–microbiome studies would reveal consistent gaps that currently impede analysis.

Methods: We conducted a scoping review (2005–2025) of human studies linking the skin, gut, or biliary microbiome to SSI using culture- or sequencing-based approaches. Eighteen eligible studies encompassing 3,170 patients and 482 SSIs were identified. Each study was evaluated using a novel six-domain methods-quality framework: (D1) Study design and sampling, (D2) laboratory and contamination control, (D3) sequencing and bioinformatics, (D4) statistics for compositional data, (D5) clinical covariates, and (D6) SSI outcome definitions.

Results: In D1, only 5.6% (n=2) reported a priori power calculations, 44.4% (n=8) relied on single-timepoint designs, limiting the ability to distinguish preoperative colonization from infection-induced microbial changes. In D2, culture-based methods dominated (66.7%, n=12), but only 41.7% (n=5/12) reported any quality-control measures. Among sequencing studies (33.3%, n=6), all described quality control, yet only 50.0% (n=3) assessed contamination or batch effects explicitly. D3 was not applicable to culture based studies and sequencing approaches were highly variable in targeted regions, pipelines, and reference databases, and strain-level resolution was rare. In D4, culture studies leaned on simple hypothesis testing, whereas only half of sequencing studies (50.0%, n=3) performed differential abundance analysis. For D5, 83% (n=15) reported at least one covariate, but across 126 distinct data elements assessed, antibiotic prophylaxis was under-captured (n=3). Finally, D6 definitions were not uniform: only 55.6% (n=10) used standardized Altemeier criteria, while 38.9% (n=7) relied on clinical judgment and 5.6% (n=1) on culture positivity alone. Surveillance windows spanned 30–730 days.

Conclusion: Current SSI–microbiome studies are constrained by fragmented methods and non-standardized reporting across six defined reporting domains. Documented gaps in statistical power, contamination control, sequencing and analytic methods, covariate capture, and SSI outcome definitions underscore the need for standardized design and reporting to enable reproducible and translatable SSI–microbiome research.