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Etiology and antimicrobial susceptibility patterns of bacteria causing pneumonia among adult patients with signs and symptoms of lower respiratory tract infections during the COVID-19 pandemic in Mwanza, Tanzania: a cross-sectional study. 坦桑尼亚姆万扎 COVID-19 大流行期间有下呼吸道感染症状和体征的成年患者中引起肺炎的细菌的病因和抗菌药敏感性模式:一项横断面研究。
IF 8.5 Q1 RESPIRATORY SYSTEM Pub Date : 2024-09-05 DOI: 10.1186/s41479-024-00137-9
Johannes Rukyaa, Martha F Mushi, Vitus Silago, Prisca Damiano, Katherine Keenan, Wilber Sabiiti, Matthew T G Holden, Jeremiah Seni, Stephen E Mshana

Background: Bacterial pneumonia is among the leading causes of morbidity and mortality worldwide. The extensive misuse and overuse of antibiotics observed during the Corona Virus Disease 2019 (COVID-19) pandemic may have changed the patterns of pathogens causing bacterial pneumonia and their antibiotic susceptibility profiles. This study was designed to establish the prevalence of culture-confirmed bacterial pneumonia and describe their antimicrobial susceptibility profile in adult patients who presented with signs and symptoms of lower respiratory tract infections (LRTIs) during the COVID-19 pandemic.

Methodology: This hospital-based cross-sectional study was conducted from July 2021 to July 2022 at a zonal referral hospital and two district hospitals in Mwanza, Tanzania. Demographic and clinical data were collected using a standardized questionnaire. Sputum samples were processed by conventional culture followed by the identification of isolates and antibiotic susceptibility testing. Descriptive data analysis was performed using STATA version 15.0.

Results: A total of 286 patients with a median age of 40 (IQR 29-60) years were enrolled in the study. More than half of the patients enrolled were females (52.4%, n = 150). The overall prevalence of bacterial pneumonia was 34.3% (n = 98). The majority of the bacterial pathogens isolated were Gram-negative bacteria (GNB) (61.2%, 60/98), with a predominance of Klebsiella spp., 38.8% (38/98), followed by Streptococcus pyogenes (21.4%, 21/98). Multi drug resistant (MDR) bacteria were detected in 72/98 (73.5%) of the isolates. The proportions of GNB-resistant strains were 60.0% (36/60) for ciprofloxacin, 60% (36/60) for amoxicillin, 60% (36/60) for amoxicillin, 68.3% (41/60) for trimethoprim-sulfamethoxazole and 58.3% (35/60) for ceftriaxone.

Conclusion: One-third of the patients with signs and symptoms of LRTIs had laboratory-confirmed bacterial pneumonia with a predominance of Gram negative MDR bacteria. This calls for continuous antimicrobial resistance (AMR) surveillance and antimicrobial stewardship programs in the study setting and other settings in developing countries as important strategies for tackling AMR.

背景:细菌性肺炎是全球发病和死亡的主要原因之一。在 2019 年科罗纳病毒病(COVID-19)大流行期间观察到的抗生素广泛滥用和过度使用可能改变了导致细菌性肺炎的病原体模式及其抗生素敏感性谱。本研究旨在确定在COVID-19大流行期间出现下呼吸道感染(LRTIs)症状和体征的成年患者中经培养确诊的细菌性肺炎的流行率,并描述其抗菌药敏感性谱:这项基于医院的横断面研究于 2021 年 7 月至 2022 年 7 月在坦桑尼亚姆万扎的一家地区转诊医院和两家地区医院进行。采用标准化问卷收集人口统计学和临床数据。痰液样本经常规培养处理后进行分离鉴定和抗生素药敏试验。使用 STATA 15.0 版本进行描述性数据分析:共有 286 名患者参与研究,中位年龄为 40 岁(IQR 29-60 岁)。超过一半的患者为女性(52.4%,n = 150)。细菌性肺炎的总发病率为 34.3%(98 人)。分离出的大多数细菌病原体是革兰氏阴性菌(GNB)(61.2%,60/98),其中以克雷伯菌属为主,占 38.8%(38/98),其次是化脓性链球菌(21.4%,21/98)。72/98(73.5%)的分离菌株中检测到耐多种药物(MDR)的细菌。对 GNB 耐药菌株的比例分别为:环丙沙星 60.0%(36/60)、阿莫西林 60%(36/60)、阿莫西林 60%(36/60)、三甲双氨-磺胺甲噁唑 68.3%(41/60)和头孢曲松 58.3%(35/60):结论:三分之一有 LRTI 症状和体征的患者经实验室确诊为细菌性肺炎,其中以革兰阴性耐药菌为主。这就要求在研究环境和发展中国家的其他环境中持续开展抗菌药物耐药性(AMR)监测和抗菌药物管理计划,以此作为应对 AMR 的重要策略。
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引用次数: 0
The importance of Haemophilus influenzae in community-acquired pneumonia: an emerging pathogen in the elderly regardless of comorbidities compared to Streptococcus pneumoniae. 流感嗜血杆菌在社区获得性肺炎中的重要性:与肺炎链球菌相比,流感嗜血杆菌是一种新出现的老年人病原体,与合并症无关。
IF 8.5 Q1 RESPIRATORY SYSTEM Pub Date : 2024-08-25 DOI: 10.1186/s41479-024-00136-w
Linda Yamba Yamba, Karin Hansen, Lisa Wasserstrom, Yu-Ching Su, Jonas Ahl, Kristian Riesbeck

Background: Haemophilus influenzae community-acquired pneumonia (CAP) is common, and it is equally common to Streptococcus pneumoniae in some settings. The purpose of this study was to provide additional data on patients affected by H. influenzae CAP and their outcomes.

Methods: Streptococcus pneumoniae-caused CAP (111 cases) was compared to CAP with H. influenzae (53 cases). Patients were adults (≥ 18 years) from the prospective study "Etiology of community acquired pneumonia in Sweden" (ECAPS), which was established during the years 2016-2018.

Results: Cases with H. influenzae CAP were significantly older compared to S. pneumoniae CAP (median 77 vs 70 years, p = 0.037) albeit similar comorbidities. Haemophilus influenzae was generally absent in the bloodstream compared to S. pneumoniae (18% vs 2%, p = 0.01) but clinical presentations were comparable. Only a minority of patients, 34% with H. influenzae and 41% with S. pneumoniae CAP had underlying lung disease.

Conclusion: In the light of childhood immunization campaigns against S. pneumoniae and the increasing numbers of pneumococcal vaccinations among the elderly, coupled with an aging population, the incidence of CAP caused by H. influenzae may increase. Further research is needed to understand the impact of H. influenzae CAP and to a development of a vaccine against this emerging microbe.

背景:流感嗜血杆菌社区获得性肺炎(CAP)很常见,在某些情况下与肺炎链球菌同样常见。本研究旨在提供更多有关流感嗜血杆菌社区获得性肺炎患者及其治疗效果的数据:方法:将肺炎链球菌引起的 CAP(111 例)与流感嗜血杆菌引起的 CAP(53 例)进行比较。患者均为成人(≥ 18 岁),来自 2016-2018 年期间开展的前瞻性研究 "瑞典社区获得性肺炎病因学"(ECAPS):结果:尽管合并症相似,但流感嗜血杆菌 CAP 病例的年龄明显高于肺炎链球菌 CAP 病例(中位数 77 岁 vs 70 岁,p = 0.037)。与肺炎双球菌相比,流感嗜血杆菌一般不出现在血流中(18% 对 2%,p = 0.01),但临床表现相似。只有34%的流感嗜血杆菌和41%的肺炎双球菌CAP患者有潜在的肺部疾病:结论:鉴于肺炎双球菌的儿童免疫接种活动和老年人接种肺炎球菌疫苗的人数不断增加,再加上人口老龄化,由流感嗜血杆菌引起的 CAP 发病率可能会增加。要了解流感嗜血杆菌 CAP 的影响,并开发出针对这种新出现微生物的疫苗,还需要进一步的研究。
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引用次数: 0
Time to recovery from severe community-acquired pneumonia and its predictors among 6 to 59 months of age children admitted to South Wollo zone public hospitals, North East Ethiopia: a prospective follow-up study. 埃塞俄比亚东北部南沃洛区公立医院收治的 6 至 59 个月大儿童患社区获得性重症肺炎后的康复时间及其预测因素:一项前瞻性随访研究。
IF 8.5 Q1 RESPIRATORY SYSTEM Pub Date : 2024-08-05 DOI: 10.1186/s41479-024-00135-x
Mekonnen Teferi, Elsabeth Addisu, Shambel Wodajo, Amare Muche, Abel Endawekie, Bezawit Adane, Tilahun Dessie, Natnael Kebede

Introduction: Ethiopia is one of those countries with higher burden of community acquired pneumonia among its people, under five children are the members of society that are highly affected by pneumonia particularly Severe Community Acquired Pneumonia. However, there are limited studies on time to recovery and its predictors in under-five children and most of them are retrospective which fails to address important variables that affect the time to recovery. Therefore, the aim of this study was to estimate the median time to recovery and its predictors among under five children admitted to South Wollo zone public hospitals, North East Ethiopia.

Methods: An institution-based prospective cohort study was conducted from March 10 to May 10, 2021, with 270 study subjects. A systematic random sampling technique was used. Data was collected by interview and chart review. The data were entered and analyzed using Epi Data version 3.1 and STATA version 14.0, respectively. Kaplan-Meier and Cox regression models were used to test the time and predictors of recovery from severe community-acquired pneumonia.

Results: The overall incidence of recovery rate (95% confidence interval) from Severe Community-Acquired Pneumonia was 20.45(17.84-23.46) per 100 person days observation with median (IQR) time to recovery of [3, 5] days. The predictors of time to recovery from Severe Community-Acquired Pneumonia were having comorbidities on admission [AHR = 0.49 (95%CI: 0.32,0.75)], reaching hospitals after 5 days of onset of symptoms [AHR = 0.35 (95%CI: 0.20,0.60)], having Middle Upper Arm Circumference < = 12.5 cm [AHR = 0.21 (95%CI: 0.12,0.37)], the presence of smoker in the house [AHR = 0.21 (95%CI: 0.10,0.42)] and being not fully immunized for age [AHR = 0.35 (95%CI: 0.24,0.53)].

Conclusion and recommendations: Generally the recovery time of children with Severe Community Acquired Pneumonia in the study area was within the recommended national standards. Due attention should be given to children with the identified predictors while treating them.

导言:埃塞俄比亚是社区获得性肺炎发病率较高的国家之一,五岁以下儿童是肺炎尤其是严重社区获得性肺炎的高发人群。然而,有关五岁以下儿童康复时间及其预测因素的研究却很有限,而且大多数研究都是回顾性的,未能解决影响康复时间的重要变量。因此,本研究旨在估算埃塞俄比亚东北部南沃洛区公立医院收治的五岁以下儿童康复时间的中位数及其预测因素:方法:2021 年 3 月 10 日至 5 月 10 日,对 270 名研究对象进行了一项基于医院的前瞻性队列研究。研究采用了系统随机抽样技术。通过访谈和病历审查收集数据。数据分别使用 Epi Data 3.1 版和 STATA 14.0 版进行输入和分析。采用 Kaplan-Meier 和 Cox 回归模型检验重症社区获得性肺炎康复的时间和预测因素:结果:重症社区获得性肺炎的总康复率(95% 置信区间)为每 100 个观察日 20.45(17.84-23.46)例,中位(IQR)康复时间为 [3, 5] 天。重症社区获得性肺炎康复时间的预测因素为入院时有合并症[AHR = 0.49 (95%CI: 0.32,0.75)]、发病 5 天后到达医院[AHR = 0.35 (95%CI: 0.20,0.60)]、臂中上臂围 结论和建议:总体而言,研究地区严重社区获得性肺炎患儿的康复时间符合推荐的国家标准。在治疗过程中,应适当关注存在已确定预测因素的儿童。
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引用次数: 0
Factors associated with severe pneumonia among children <5 years, Kasese District, Uganda: a case-control study, January-April 2023. 乌干达卡塞塞地区 5 岁以下儿童患重症肺炎的相关因素:病例对照研究,2023 年 1-4 月。
IF 8.5 Q1 RESPIRATORY SYSTEM Pub Date : 2024-07-25 DOI: 10.1186/s41479-024-00134-y
Mercy Wendy Wanyana, Richard Migisha, Patrick King, Abraham Kibaba Muhesi, Benon Kwesiga, Daniel Kadobera, Lilian Bulage, Alex Riolexus Ario

Background: Pneumonia is one of the leading causes of infant mortality globally, particularly in sub-Saharan Africa. In Uganda, pneumonia was the fourth leading cause of death in children <5 years in 2018. Analysis of 2013-2022 data for children <5 years from the District Health Information System indicated a high incidence of severe pneumonia in Kasese District, Uganda. We investigated to identify factors associated with severe pneumonia among children <5 years in Kasese District to inform prevention and control strategies.

Methods: We conducted a 1:1 hospital-based case-control study among children aged 2-59 months presenting with pneumonia at five high-volume facilities in Kasese District from January to April 2023. A case was defined as pneumonia with ≥1 of the following danger signs: low oxygen saturation, central cyanosis, severe respiratory distress, feeding difficulties, altered consciousness, and convulsions. Controls were outpatient children aged 2-59 months with a diagnosis of non-severe pneumonia. We reviewed medical records at facilities and used an interviewer-administered questionnaire with caregivers to obtain information on socio-demographic and clinical characteristics. Logistic regression was used to identify factors associated with severe pneumonia.

Results: We enrolled 199 cases and 174 controls. The odds of severe pneumonia were higher among children with diarrhoea only (adjusted odds ratio [aOR] = 2.9, 95%CI: 1.7-4.9), or malaria and diarrhoea (aOR = 3.4, 95%CI: 2.0-5.9), than those without a co-existing illness at the time of pneumonia diagnosis. Not being exclusively breastfed for ≥ 6 months (aOR = 2.0, 95%CI: 1.1-3.3) and exposure to indoor air pollution from cooking combustion sources (aOR = 2.9, 95%CI: 1.8-4.7) increased odds of severe pneumonia.

Conclusion: The findings highlight the significance of comorbidities, lack of exclusive breastfeeding, and exposure to indoor air pollution in the development of severe pneumonia. Promoting exclusive breastfeeding for ≥ 6 months and advocating for the use of clean energy sources, could mitigate morbidity attributable to severe pneumonia in the region.

背景:肺炎是全球婴儿死亡的主要原因之一,尤其是在撒哈拉以南非洲地区。在乌干达,肺炎是导致儿童死亡的第四大原因:2023 年 1 月至 4 月,我们在卡塞塞区的五家大医院对 2-59 个月大的肺炎患儿进行了 1:1 的医院病例对照研究。病例的定义是肺炎伴有以下≥1种危险征兆:低血氧饱和度、中心性紫绀、严重呼吸困难、喂养困难、意识改变和抽搐。对照组为诊断为非重症肺炎的 2-59 个月大门诊儿童。我们查阅了各医疗机构的病历,并对护理人员进行了访谈式问卷调查,以获得有关社会人口学和临床特征的信息。采用逻辑回归法确定与重症肺炎相关的因素:我们登记了 199 例病例和 174 例对照。仅患有腹泻(调整后的几率比 [aOR] = 2.9,95%CI:1.7-4.9)或患有疟疾和腹泻(aOR = 3.4,95%CI:2.0-5.9)的儿童患重症肺炎的几率高于确诊肺炎时没有并发症的儿童。纯母乳喂养时间不足 6 个月(aOR = 2.0,95%CI:1.1-3.3)和受到烹饪燃烧源造成的室内空气污染(aOR = 2.9,95%CI:1.8-4.7)会增加患重症肺炎的几率:研究结果强调了合并症、缺乏纯母乳喂养和暴露于室内空气污染在重症肺炎发病中的重要性。推广纯母乳喂养≥6个月和提倡使用清洁能源,可降低该地区重症肺炎的发病率。
{"title":"Factors associated with severe pneumonia among children <5 years, Kasese District, Uganda: a case-control study, January-April 2023.","authors":"Mercy Wendy Wanyana, Richard Migisha, Patrick King, Abraham Kibaba Muhesi, Benon Kwesiga, Daniel Kadobera, Lilian Bulage, Alex Riolexus Ario","doi":"10.1186/s41479-024-00134-y","DOIUrl":"10.1186/s41479-024-00134-y","url":null,"abstract":"<p><strong>Background: </strong>Pneumonia is one of the leading causes of infant mortality globally, particularly in sub-Saharan Africa. In Uganda, pneumonia was the fourth leading cause of death in children <5 years in 2018. Analysis of 2013-2022 data for children <5 years from the District Health Information System indicated a high incidence of severe pneumonia in Kasese District, Uganda. We investigated to identify factors associated with severe pneumonia among children <5 years in Kasese District to inform prevention and control strategies.</p><p><strong>Methods: </strong>We conducted a 1:1 hospital-based case-control study among children aged 2-59 months presenting with pneumonia at five high-volume facilities in Kasese District from January to April 2023. A case was defined as pneumonia with ≥1 of the following danger signs: low oxygen saturation, central cyanosis, severe respiratory distress, feeding difficulties, altered consciousness, and convulsions. Controls were outpatient children aged 2-59 months with a diagnosis of non-severe pneumonia. We reviewed medical records at facilities and used an interviewer-administered questionnaire with caregivers to obtain information on socio-demographic and clinical characteristics. Logistic regression was used to identify factors associated with severe pneumonia.</p><p><strong>Results: </strong>We enrolled 199 cases and 174 controls. The odds of severe pneumonia were higher among children with diarrhoea only (adjusted odds ratio [aOR] = 2.9, 95%CI: 1.7-4.9), or malaria and diarrhoea (aOR = 3.4, 95%CI: 2.0-5.9), than those without a co-existing illness at the time of pneumonia diagnosis. Not being exclusively breastfed for ≥ 6 months (aOR = 2.0, 95%CI: 1.1-3.3) and exposure to indoor air pollution from cooking combustion sources (aOR = 2.9, 95%CI: 1.8-4.7) increased odds of severe pneumonia.</p><p><strong>Conclusion: </strong>The findings highlight the significance of comorbidities, lack of exclusive breastfeeding, and exposure to indoor air pollution in the development of severe pneumonia. Promoting exclusive breastfeeding for ≥ 6 months and advocating for the use of clean energy sources, could mitigate morbidity attributable to severe pneumonia in the region.</p>","PeriodicalId":45120,"journal":{"name":"Pneumonia","volume":"16 1","pages":"13"},"PeriodicalIF":8.5,"publicationDate":"2024-07-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11270805/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141761513","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Early detection of tuberculosis: a systematic review. 结核病的早期检测:系统回顾。
IF 8.5 Q1 RESPIRATORY SYSTEM Pub Date : 2024-07-05 DOI: 10.1186/s41479-024-00133-z
Josef Yayan, Karl-Josef Franke, Melanie Berger, Wolfram Windisch, Kurt Rasche

Tuberculosis remains a significant global health challenge. Tuberculosis affects millions of individuals worldwide. Early detection of tuberculosis plays a relevant role in the management of treatment of tuberculosis. This systematic review will analyze the findings of several published studies on the topic of the early detection of tuberculosis. This systematic review highlights their methodologies and limitations as well as their contributions to our understanding of this pressing issue. Early detection of tuberculosis can be achieved through tuberculosis screening for contacts. Comprehensive health education for household contacts can be used as early detection. The in-house deep learning models can be used in the X-ray used for automatic detection of tuberculosis. Interferon gamma release assay, routine passive and active case detection, portable X-ray and nucleic acid amplification testing, and highly sensitive enzyme-linked immunosorbent assay tests play critical roles in improving tuberculosis detection.

结核病仍然是全球健康面临的重大挑战。结核病影响着全球数百万人。结核病的早期发现在结核病的治疗管理中发挥着重要作用。本系统综述将分析已发表的几项关于结核病早期检测主题的研究结果。本系统综述将重点介绍这些研究的方法和局限性,以及它们对我们了解这一紧迫问题所做的贡献。结核病的早期发现可以通过对接触者进行结核病筛查来实现。针对家庭接触者的全面健康教育可作为早期检测手段。内部深度学习模型可用于自动检测结核病的 X 射线。伽马干扰素释放检测、常规被动和主动病例检测、便携式 X 射线和核酸扩增检测以及高灵敏度酶联免疫吸附检测在改进结核病检测方面发挥着至关重要的作用。
{"title":"Early detection of tuberculosis: a systematic review.","authors":"Josef Yayan, Karl-Josef Franke, Melanie Berger, Wolfram Windisch, Kurt Rasche","doi":"10.1186/s41479-024-00133-z","DOIUrl":"10.1186/s41479-024-00133-z","url":null,"abstract":"<p><p>Tuberculosis remains a significant global health challenge. Tuberculosis affects millions of individuals worldwide. Early detection of tuberculosis plays a relevant role in the management of treatment of tuberculosis. This systematic review will analyze the findings of several published studies on the topic of the early detection of tuberculosis. This systematic review highlights their methodologies and limitations as well as their contributions to our understanding of this pressing issue. Early detection of tuberculosis can be achieved through tuberculosis screening for contacts. Comprehensive health education for household contacts can be used as early detection. The in-house deep learning models can be used in the X-ray used for automatic detection of tuberculosis. Interferon gamma release assay, routine passive and active case detection, portable X-ray and nucleic acid amplification testing, and highly sensitive enzyme-linked immunosorbent assay tests play critical roles in improving tuberculosis detection.</p>","PeriodicalId":45120,"journal":{"name":"Pneumonia","volume":"16 1","pages":"11"},"PeriodicalIF":8.5,"publicationDate":"2024-07-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11225244/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141535647","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Obtaining patient phenotypes in SARS-CoV-2 pneumonia, and their association with clinical severity and mortality. 获取 SARS-CoV-2 肺炎患者的表型及其与临床严重程度和死亡率的关系。
IF 8.5 Q1 RESPIRATORY SYSTEM Pub Date : 2024-06-25 DOI: 10.1186/s41479-024-00132-0
Fernando García-García, Dae-Jin Lee, Mónica Nieves-Ermecheo, Olaia Bronte, Pedro Pablo España, José María Quintana, Rosario Menéndez, Antoni Torres, Luis Alberto Ruiz Iturriaga, Isabel Urrutia
<p><strong>Background: </strong>There exists consistent empirical evidence in the literature pointing out ample heterogeneity in terms of the clinical evolution of patients with COVID-19. The identification of specific phenotypes underlying in the population might contribute towards a better understanding and characterization of the different courses of the disease. The aim of this study was to identify distinct clinical phenotypes among hospitalized patients with SARS-CoV-2 pneumonia using machine learning clustering, and to study their association with subsequent clinical outcomes as severity and mortality.</p><p><strong>Methods: </strong>Multicentric observational, prospective, longitudinal, cohort study conducted in four hospitals in Spain. We included adult patients admitted for in-hospital stay due to SARS-CoV-2 pneumonia. We collected a broad spectrum of variables to describe exhaustively each case: patient demographics, comorbidities, symptoms, physiological status, baseline examinations (blood analytics, arterial gas test), etc. For the development and internal validation of the clustering/phenotype models, the dataset was split into training and test sets (50% each). We proposed a sequence of machine learning stages: feature scaling, missing data imputation, reduction of data dimensionality via Kernel Principal Component Analysis (KPCA), and clustering with the k-means algorithm. The optimal cluster model parameters -including k, the number of phenotypes- were chosen automatically, by maximizing the average Silhouette score across the training set.</p><p><strong>Results: </strong>We enrolled 1548 patients, each of them characterized by 92 clinical attributes (d=109 features after variable encoding). Our clustering algorithm identified k=3 distinct phenotypes and 18 strongly informative variables: Phenotype A (788 cases [50.9% prevalence] - age <math><mo>∼</mo></math> 57, Charlson comorbidity <math><mo>∼</mo></math> 1, pneumonia CURB-65 score <math><mo>∼</mo></math> 0 to 1, respiratory rate at admission <math><mo>∼</mo></math> 18 min<sup>-1</sup>, FiO<sub>2</sub> <math><mo>∼</mo></math> 21%, C-reactive protein CRP <math><mo>∼</mo></math> 49.5 mg/dL [median within cluster]); phenotype B (620 cases [40.0%] - age <math><mo>∼</mo></math> 75, Charlson <math><mo>∼</mo></math> 5, CURB-65 <math><mo>∼</mo></math> 1 to 2, respiration <math><mo>∼</mo></math> 20 min<sup>-1</sup>, FiO<sub>2</sub> <math><mo>∼</mo></math> 21%, CRP <math><mo>∼</mo></math> 101.5 mg/dL); and phenotype C (140 cases [9.0%] - age <math><mo>∼</mo></math> 71, Charlson <math><mo>∼</mo></math> 4, CURB-65 <math><mo>∼</mo></math> 0 to 2, respiration <math><mo>∼</mo></math> 30 min<sup>-1</sup>, FiO<sub>2</sub> <math><mo>∼</mo></math> 38%, CRP <math><mo>∼</mo></math> 152.3 mg/dL). Hypothesis testing provided solid statistical evidence supporting an interaction between phenotype and each clinical outcome: severity and mortality. By computing their corresponding odds ratios, a clear t
背景:文献中有一致的实证证据表明,COVID-19 患者的临床演变具有很大的异质性。确定人群中潜在的特定表型可能有助于更好地理解和描述该疾病的不同病程。本研究的目的是利用机器学习聚类方法在住院的 SARS-CoV-2 肺炎患者中识别出不同的临床表型,并研究它们与随后的临床结果(如严重程度和死亡率)之间的关系:在西班牙四家医院开展的多中心观察性、前瞻性、纵向队列研究。研究对象包括因 SARS-CoV-2 肺炎住院的成年患者。我们收集了大量变量,以详尽描述每个病例:患者的人口统计学特征、合并症、症状、生理状态、基线检查(血液分析、动脉气体测试)等。为了开发和内部验证聚类/表型模型,数据集被分成训练集和测试集(各占 50%)。我们提出了一系列机器学习阶段:特征缩放、缺失数据估算、通过核主成分分析(KPCA)降低数据维度,以及使用 k-means 算法进行聚类。通过最大化整个训练集的平均 Silhouette 分数,自动选择最佳聚类模型参数(包括表型数量 k):我们招募了 1548 名患者,每名患者都有 92 个临床属性(变量编码后为 109 个特征)。我们的聚类算法确定了 k=3 个不同的表型和 18 个强信息变量:表型 A(788 例 [50.9% 患病率] - 年龄 ∼ 57 岁,Charlson 合并症 ∼ 1,肺炎 CURB-65 评分 ∼ 0 至 1,入院时呼吸频率 ∼ 18 min-1,FiO2 ∼ 21%,C 反应蛋白 CRP ∼ 49.5 mg/dL [聚类内中位数]);表型 B(620 例 [40.0%] - 年龄 ∼ 75 岁,Charlson ∼ 5 岁,CURB-65 ∼ 1 至 2 岁,呼吸频率 ∼ 20 min-1,FiO2 ∼ 21%,CRP ∼ 101.5 mg/dL);表型 C(140 例 [9.0%]-年龄 ∼ 71,Charlson ∼ 4,CURB-65 ∼ 0 至 2,呼吸 ∼ 30 min-1,FiO2 ∼ 38%,CRP ∼ 152.3 mg/dL)。假设检验提供了可靠的统计证据,证明表型与严重程度和死亡率这两个临床结果之间存在相互作用。通过计算相应的几率比,我们发现一个明显的趋势,即表型 C 的不利演变频率高于表型 B,表型 B 的不利演变频率也高于表型 A:复合无监督聚类技术(包括对其内部参数的全自动优化)揭示了存在三个不同的患者群体--表型。反过来,这些表型又与肺炎进展的临床严重程度和死亡率密切相关。
{"title":"Obtaining patient phenotypes in SARS-CoV-2 pneumonia, and their association with clinical severity and mortality.","authors":"Fernando García-García, Dae-Jin Lee, Mónica Nieves-Ermecheo, Olaia Bronte, Pedro Pablo España, José María Quintana, Rosario Menéndez, Antoni Torres, Luis Alberto Ruiz Iturriaga, Isabel Urrutia","doi":"10.1186/s41479-024-00132-0","DOIUrl":"10.1186/s41479-024-00132-0","url":null,"abstract":"&lt;p&gt;&lt;strong&gt;Background: &lt;/strong&gt;There exists consistent empirical evidence in the literature pointing out ample heterogeneity in terms of the clinical evolution of patients with COVID-19. The identification of specific phenotypes underlying in the population might contribute towards a better understanding and characterization of the different courses of the disease. The aim of this study was to identify distinct clinical phenotypes among hospitalized patients with SARS-CoV-2 pneumonia using machine learning clustering, and to study their association with subsequent clinical outcomes as severity and mortality.&lt;/p&gt;&lt;p&gt;&lt;strong&gt;Methods: &lt;/strong&gt;Multicentric observational, prospective, longitudinal, cohort study conducted in four hospitals in Spain. We included adult patients admitted for in-hospital stay due to SARS-CoV-2 pneumonia. We collected a broad spectrum of variables to describe exhaustively each case: patient demographics, comorbidities, symptoms, physiological status, baseline examinations (blood analytics, arterial gas test), etc. For the development and internal validation of the clustering/phenotype models, the dataset was split into training and test sets (50% each). We proposed a sequence of machine learning stages: feature scaling, missing data imputation, reduction of data dimensionality via Kernel Principal Component Analysis (KPCA), and clustering with the k-means algorithm. The optimal cluster model parameters -including k, the number of phenotypes- were chosen automatically, by maximizing the average Silhouette score across the training set.&lt;/p&gt;&lt;p&gt;&lt;strong&gt;Results: &lt;/strong&gt;We enrolled 1548 patients, each of them characterized by 92 clinical attributes (d=109 features after variable encoding). Our clustering algorithm identified k=3 distinct phenotypes and 18 strongly informative variables: Phenotype A (788 cases [50.9% prevalence] - age &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 57, Charlson comorbidity &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 1, pneumonia CURB-65 score &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 0 to 1, respiratory rate at admission &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 18 min&lt;sup&gt;-1&lt;/sup&gt;, FiO&lt;sub&gt;2&lt;/sub&gt; &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 21%, C-reactive protein CRP &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 49.5 mg/dL [median within cluster]); phenotype B (620 cases [40.0%] - age &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 75, Charlson &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 5, CURB-65 &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 1 to 2, respiration &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 20 min&lt;sup&gt;-1&lt;/sup&gt;, FiO&lt;sub&gt;2&lt;/sub&gt; &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 21%, CRP &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 101.5 mg/dL); and phenotype C (140 cases [9.0%] - age &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 71, Charlson &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 4, CURB-65 &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 0 to 2, respiration &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 30 min&lt;sup&gt;-1&lt;/sup&gt;, FiO&lt;sub&gt;2&lt;/sub&gt; &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 38%, CRP &lt;math&gt;&lt;mo&gt;∼&lt;/mo&gt;&lt;/math&gt; 152.3 mg/dL). Hypothesis testing provided solid statistical evidence supporting an interaction between phenotype and each clinical outcome: severity and mortality. By computing their corresponding odds ratios, a clear t","PeriodicalId":45120,"journal":{"name":"Pneumonia","volume":"16 1","pages":"12"},"PeriodicalIF":8.5,"publicationDate":"2024-06-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11637184/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141447271","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Back to the future: the novel art of digital auscultation applied in a prospective observational study of critically ill Covid-19 patients. 回到未来:数字听诊新技术在危重病人 Covid-19 前瞻性观察研究中的应用。
IF 6.8 Q1 RESPIRATORY SYSTEM Pub Date : 2024-06-05 DOI: 10.1186/s41479-024-00131-1
Evangelos Kaimakamis, Serafeim Kotoulas, Myrto Tzimou, Christos Karachristos, Chrysavgi Giannaki, Vassileios Kilintzis, Leandros Stefanopoulos, Evangelos Chatzis, Nikolaos Beredimas, Bruno Rocha, Diogo Pessoa, Rui Pedro Paiva, Nicos Maglaveras, Militsa Bitzani

Background: The Covid-19 pandemic has caused immense pressure on Intensive Care Units (ICU). In patients with severe ARDS due to Covid-19, respiratory mechanics are important for determining the severity of lung damage. Lung auscultation could not be used during the pandemic despite its merit. The main objective of this study was to investigate associations between lung auscultatory sound features and lung mechanical properties, length of stay (LOS) and survival, in adults with severe Covid-19 ARDS.

Methods: Consecutive patients admitted to a large ICU between 2020 and 2021 (n = 173) were included. Digital stethoscopes obtained auscultatory sounds and stored them in an on-line database for replay and further processing using advanced AI techniques. Correlation and regression analysis explored relationships between digital auscultation findings and lung mechanics or the ICU outcome. The resulting annotated lung sounds database is also publicly available as supplementary material.

Results: The presence of squawks was associated with the ICU LOS, outcome and 90-day mortality. Other features (age, SOFA score & oxygenation index upon admission, minimum crackle entropy) had significant impact on outcome. Additional features affecting the 90-d survival were age and mean crackle entropy. Multivariate logistic regression showed that survival was affected by age, baseline SOFA, baseline oxygenation index and minimum crackle entropy.

Conclusions: Respiratory mechanics were associated with various adventitious sounds, whereas the lung sound analytics and the presence of certain adventitious sounds correlated with the ICU outcome and the 90-d survival. Spectral features of crackles sounds can serve as prognostic factors for survival, highlighting the importance of digital auscultation.

背景:Covid-19 大流行给重症监护病房(ICU)造成了巨大压力。对于因 Covid-19 而导致严重 ARDS 的患者,呼吸力学对于确定肺损伤的严重程度非常重要。尽管肺部听诊有其优点,但在大流行期间却无法使用。本研究的主要目的是调查严重 Covid-19 ARDS 成人患者的肺部听诊声音特征与肺部机械特性、住院时间(LOS)和存活率之间的关系:方法:纳入 2020 年至 2021 年期间入住大型重症监护病房的连续患者(n = 173)。数字听诊器获取听诊音,并将其存储到在线数据库中,以便重放和使用先进的人工智能技术进一步处理。相关性和回归分析探讨了数字听诊结果与肺力学或重症监护室结果之间的关系。由此产生的肺部声音注释数据库也作为补充材料公开发布:结果:"唧唧 "声的存在与重症监护室的住院时间、预后和 90 天死亡率有关。其他特征(年龄、入院时的 SOFA 评分和氧合指数、最小噼啪熵)对结果有显著影响。影响 90 天存活率的其他特征还有年龄和平均噼啪熵。多变量逻辑回归显示,年龄、基线SOFA、基线氧合指数和最小噼啪熵对存活率有影响:结论:呼吸力学与各种杂音有关,而肺部声音分析和某些杂音的存在与重症监护室的结果和 90 天存活率相关。噼啪声的频谱特征可作为生存率的预后因素,突出了数字听诊的重要性。
{"title":"Back to the future: the novel art of digital auscultation applied in a prospective observational study of critically ill Covid-19 patients.","authors":"Evangelos Kaimakamis, Serafeim Kotoulas, Myrto Tzimou, Christos Karachristos, Chrysavgi Giannaki, Vassileios Kilintzis, Leandros Stefanopoulos, Evangelos Chatzis, Nikolaos Beredimas, Bruno Rocha, Diogo Pessoa, Rui Pedro Paiva, Nicos Maglaveras, Militsa Bitzani","doi":"10.1186/s41479-024-00131-1","DOIUrl":"10.1186/s41479-024-00131-1","url":null,"abstract":"<p><strong>Background: </strong>The Covid-19 pandemic has caused immense pressure on Intensive Care Units (ICU). In patients with severe ARDS due to Covid-19, respiratory mechanics are important for determining the severity of lung damage. Lung auscultation could not be used during the pandemic despite its merit. The main objective of this study was to investigate associations between lung auscultatory sound features and lung mechanical properties, length of stay (LOS) and survival, in adults with severe Covid-19 ARDS.</p><p><strong>Methods: </strong>Consecutive patients admitted to a large ICU between 2020 and 2021 (n = 173) were included. Digital stethoscopes obtained auscultatory sounds and stored them in an on-line database for replay and further processing using advanced AI techniques. Correlation and regression analysis explored relationships between digital auscultation findings and lung mechanics or the ICU outcome. The resulting annotated lung sounds database is also publicly available as supplementary material.</p><p><strong>Results: </strong>The presence of squawks was associated with the ICU LOS, outcome and 90-day mortality. Other features (age, SOFA score & oxygenation index upon admission, minimum crackle entropy) had significant impact on outcome. Additional features affecting the 90-d survival were age and mean crackle entropy. Multivariate logistic regression showed that survival was affected by age, baseline SOFA, baseline oxygenation index and minimum crackle entropy.</p><p><strong>Conclusions: </strong>Respiratory mechanics were associated with various adventitious sounds, whereas the lung sound analytics and the presence of certain adventitious sounds correlated with the ICU outcome and the 90-d survival. Spectral features of crackles sounds can serve as prognostic factors for survival, highlighting the importance of digital auscultation.</p>","PeriodicalId":45120,"journal":{"name":"Pneumonia","volume":"16 1","pages":"9"},"PeriodicalIF":6.8,"publicationDate":"2024-06-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11151547/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141248817","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Invasive pulmonary aspergillosis among patients with severe community-acquired pneumonia and influenza in ICUs: a retrospective cohort study. 重症监护病房重症社区获得性肺炎和流感患者中的侵袭性肺曲霉菌病:一项回顾性队列研究。
IF 6.8 Q1 RESPIRATORY SYSTEM Pub Date : 2024-05-25 DOI: 10.1186/s41479-024-00129-9
Wei-Chun Lee, Che-Chia Chang, Meng-Chin Ho, Chieh-Mo Lin, Shaw-Woei Leu, Chin-Kuo Lin, Yu-Hung Fang, Shu-Yi Huang, Yu-Ching Lin, Min-Chun Chuang, Tsung-Ming Yang, Ming-Szu Hung, Yen-Li Chou, Ying-Huang Tsai, Meng-Jer Hsieh

Rationale: The prevalence, clinical characteristics, and outcomes of invasive pulmonary aspergillosis in patients with severe community-acquired pneumonia (CAP) in intensive care units remain underestimated because of the lack of a disease-recognition scheme and the inadequacy of diagnostic tests.

Objectives: To identify the prevalence, risk factors, and outcomes of severe CAP complicated with invasive pulmonary aspergillosis (IPA) in intensive care units (ICUs).

Methods: We conducted a retrospective cohort study including recruited 311 ICU-hospitalized patients with severe CAP without influenza or with influenza. Bronchoalveolar lavage fluid (BALF) samples were from all patients and subjected to mycological testing. Patients were categorized as having proven or probable Aspergillus infection using a modified form of the AspICU algorithm comprising clinical, radiological, and mycological criteria.

Measurements and main results: Of the 252 patients with severe CAP and 59 influenza patients evaluated, 24 met the diagnostic criteria for proven or probable Aspergillus infection in the CAP group and 9 patients in the influenza group, giving estimated prevalence values of 9.5% and 15.3%, respectively. COPD and the use of inhaled corticosteroids were independent risk factors for IPA. IPA in patients with severe CAP was significantly associated with the duration of mechanical support, the length of ICU stay, and the 28-day mortality.

Conclusions: An aggressive diagnostic approach for IPA patients with severe CAP and not only influenza or COVID-19 should be pursued. Further randomized controlled trials need to evaluate the timing, safety, and efficacy of antifungal therapy in reducing IPA incidence and improving clinical outcomes.

理由:由于缺乏疾病识别方案以及诊断测试的不足,重症监护病房重症社区获得性肺炎(CAP)患者中侵袭性肺曲霉菌病的发病率、临床特征和预后仍被低估:目的:确定重症监护病房(ICU)中并发侵袭性肺曲霉菌病(IPA)的重症CAP的发病率、风险因素和预后:我们进行了一项回顾性队列研究,共招募了 311 名重症监护病房住院的重症 CAP 患者,这些患者既没有患流感,也没有患流感。对所有患者的支气管肺泡灌洗液(BALF)样本进行了真菌学检测。采用改良版的 AspICU 算法(包括临床、放射学和霉菌学标准),将患者分为已证实或可能感染曲霉菌:在接受评估的 252 名重症 CAP 患者和 59 名流感患者中,CAP 组有 24 人符合证实或可能感染曲霉菌的诊断标准,流感组有 9 人,估计感染率分别为 9.5% 和 15.3%。慢性阻塞性肺病和吸入皮质类固醇是导致 IPA 的独立风险因素。重症CAP患者的IPA与机械支持的持续时间、重症监护室的住院时间和28天的死亡率有显著相关性:结论:对于患有重症 CAP 的 IPA 患者,应采取积极的诊断方法,而不仅仅是流感或 COVID-19。需要进一步开展随机对照试验,评估抗真菌治疗在降低 IPA 发病率和改善临床预后方面的时机、安全性和有效性。
{"title":"Invasive pulmonary aspergillosis among patients with severe community-acquired pneumonia and influenza in ICUs: a retrospective cohort study.","authors":"Wei-Chun Lee, Che-Chia Chang, Meng-Chin Ho, Chieh-Mo Lin, Shaw-Woei Leu, Chin-Kuo Lin, Yu-Hung Fang, Shu-Yi Huang, Yu-Ching Lin, Min-Chun Chuang, Tsung-Ming Yang, Ming-Szu Hung, Yen-Li Chou, Ying-Huang Tsai, Meng-Jer Hsieh","doi":"10.1186/s41479-024-00129-9","DOIUrl":"10.1186/s41479-024-00129-9","url":null,"abstract":"<p><strong>Rationale: </strong>The prevalence, clinical characteristics, and outcomes of invasive pulmonary aspergillosis in patients with severe community-acquired pneumonia (CAP) in intensive care units remain underestimated because of the lack of a disease-recognition scheme and the inadequacy of diagnostic tests.</p><p><strong>Objectives: </strong>To identify the prevalence, risk factors, and outcomes of severe CAP complicated with invasive pulmonary aspergillosis (IPA) in intensive care units (ICUs).</p><p><strong>Methods: </strong>We conducted a retrospective cohort study including recruited 311 ICU-hospitalized patients with severe CAP without influenza or with influenza. Bronchoalveolar lavage fluid (BALF) samples were from all patients and subjected to mycological testing. Patients were categorized as having proven or probable Aspergillus infection using a modified form of the AspICU algorithm comprising clinical, radiological, and mycological criteria.</p><p><strong>Measurements and main results: </strong>Of the 252 patients with severe CAP and 59 influenza patients evaluated, 24 met the diagnostic criteria for proven or probable Aspergillus infection in the CAP group and 9 patients in the influenza group, giving estimated prevalence values of 9.5% and 15.3%, respectively. COPD and the use of inhaled corticosteroids were independent risk factors for IPA. IPA in patients with severe CAP was significantly associated with the duration of mechanical support, the length of ICU stay, and the 28-day mortality.</p><p><strong>Conclusions: </strong>An aggressive diagnostic approach for IPA patients with severe CAP and not only influenza or COVID-19 should be pursued. Further randomized controlled trials need to evaluate the timing, safety, and efficacy of antifungal therapy in reducing IPA incidence and improving clinical outcomes.</p>","PeriodicalId":45120,"journal":{"name":"Pneumonia","volume":"16 1","pages":"10"},"PeriodicalIF":6.8,"publicationDate":"2024-05-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11127357/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141094531","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Accuracy of the recording of pneumonia events in English electronic healthcare record data in patients with chronic obstructive pulmonary disease. 慢性阻塞性肺病患者的英语电子医疗记录数据中肺炎事件记录的准确性。
IF 6.8 Q1 RESPIRATORY SYSTEM Pub Date : 2024-05-05 DOI: 10.1186/s41479-024-00130-2
Alexander J Adamson, Constantinos Kallis, Ian Douglas, Jennifer K Quint

Background: In primary care, identifying pneumonia events in people with chronic obstructive pulmonary disease (COPD) may be challenging due to similarities in symptoms with COPD exacerbations and lack of diagnostic testing. This study explored the accuracy of pneumonia diagnosis coded in primary care by comparing diagnosis in primary care with diagnosis in hospital.

Methods: A study population of people with COPD in England was created using the Clinical Practice Research Datalink Aurum database linked with Hospital Episode Statistics inpatient data. Pneumonia codes only, and pneumonia code with associated clinical and/or treatment codes (chest x-ray, symptoms, antibiotics, sputum and blood culture) were used to determine pneumonia events in primary care. Events that were followed by hospitalisation within 7 days were used to estimate the positive predictive value (PPV) of pneumonia coding in primary care, using primary diagnosis of pneumonia in secondary care as the gold standard. The PPV of primary care recording of hospitalised pneumonia was also calculated.

Results: Two hundred seventy-four thousand one hundred fifty-six COPD patients were eligible for inclusion, of whom 7,560 had an eligible pneumonia event in primary care diagnosed between 2015-2019 which was not 'hospital-acquired' and was diagnosed and entered on the same day. Of the 2,094 events which were followed by hospitalisation within 7 days, 1,208 had a primary diagnosis of pneumonia in hospital, representing a PPV of pneumonia coding in primary care of 57.7% (95% CI 55.6%-59.8%). Another 284 (13.6%) were diagnosed as a COPD exacerbation and 114 (5.4%) were diagnosed as another respiratory disease. Use of additional pneumonia clinical and treatment codes had a modest effect on the PPV but substantially lowered the number of events. Of the 33,603 eligible pneumonia events identified in secondary care, only 11,445 were recorded in primary care within 42 days, representing a sensitivity of 34.1% (95% CI 33.6%-34.6%).

Conclusions: Use of primary care pneumonia codes and associated clinical and treatment codes to determine pneumonia is not recommended due to significant levels of misdiagnosis and many hospitalised events failing to be recorded in primary care.

背景:在初级医疗中,由于慢性阻塞性肺病(COPD)患者的症状与慢性阻塞性肺病(COPD)加重的症状相似,且缺乏诊断测试,因此识别慢性阻塞性肺病(COPD)患者的肺炎事件可能具有挑战性。本研究通过比较基层医疗机构的诊断与医院的诊断,探讨了基层医疗机构对肺炎诊断编码的准确性:方法:利用临床实践研究数据链 Aurum 数据库与医院病历统计住院病人数据相连接,建立了英格兰慢性阻塞性肺病患者研究人群。仅使用肺炎代码、肺炎代码及相关临床和/或治疗代码(胸部 X 光检查、症状、抗生素、痰液和血液培养)来确定初级保健中的肺炎事件。以二级医疗机构的肺炎初诊为金标准,使用 7 天内住院的事件来估算基层医疗机构肺炎编码的阳性预测值 (PPV)。同时还计算了基层医疗机构记录住院肺炎的 PPV:有 27.4156 万名慢性阻塞性肺病患者符合纳入条件,其中有 7560 名患者在 2015-2019 年期间在初级医疗机构诊断出符合条件的肺炎事件,该事件并非 "医院获得性 "肺炎,且在同一天诊断和输入。在 2,094 例 7 天内住院的事件中,1,208 例经医院初诊为肺炎,这表明初级医疗肺炎编码的 PPV 为 57.7%(95% CI 55.6%-59.8%)。另有 284 例(13.6%)被诊断为慢性阻塞性肺病加重,114 例(5.4%)被诊断为其他呼吸道疾病。使用额外的肺炎临床和治疗代码对 PPV 的影响不大,但却大大降低了事件的数量。在二级医疗机构发现的 33603 例符合条件的肺炎事件中,只有 11445 例在 42 天内由初级医疗机构进行了记录,灵敏度为 34.1%(95% CI 33.6%-34.6%):结论:不建议使用初级医疗肺炎代码及相关临床和治疗代码来确定肺炎,因为误诊率很高,而且许多住院事件未能在初级医疗中记录下来。
{"title":"Accuracy of the recording of pneumonia events in English electronic healthcare record data in patients with chronic obstructive pulmonary disease.","authors":"Alexander J Adamson, Constantinos Kallis, Ian Douglas, Jennifer K Quint","doi":"10.1186/s41479-024-00130-2","DOIUrl":"https://doi.org/10.1186/s41479-024-00130-2","url":null,"abstract":"<p><strong>Background: </strong>In primary care, identifying pneumonia events in people with chronic obstructive pulmonary disease (COPD) may be challenging due to similarities in symptoms with COPD exacerbations and lack of diagnostic testing. This study explored the accuracy of pneumonia diagnosis coded in primary care by comparing diagnosis in primary care with diagnosis in hospital.</p><p><strong>Methods: </strong>A study population of people with COPD in England was created using the Clinical Practice Research Datalink Aurum database linked with Hospital Episode Statistics inpatient data. Pneumonia codes only, and pneumonia code with associated clinical and/or treatment codes (chest x-ray, symptoms, antibiotics, sputum and blood culture) were used to determine pneumonia events in primary care. Events that were followed by hospitalisation within 7 days were used to estimate the positive predictive value (PPV) of pneumonia coding in primary care, using primary diagnosis of pneumonia in secondary care as the gold standard. The PPV of primary care recording of hospitalised pneumonia was also calculated.</p><p><strong>Results: </strong>Two hundred seventy-four thousand one hundred fifty-six COPD patients were eligible for inclusion, of whom 7,560 had an eligible pneumonia event in primary care diagnosed between 2015-2019 which was not 'hospital-acquired' and was diagnosed and entered on the same day. Of the 2,094 events which were followed by hospitalisation within 7 days, 1,208 had a primary diagnosis of pneumonia in hospital, representing a PPV of pneumonia coding in primary care of 57.7% (95% CI 55.6%-59.8%). Another 284 (13.6%) were diagnosed as a COPD exacerbation and 114 (5.4%) were diagnosed as another respiratory disease. Use of additional pneumonia clinical and treatment codes had a modest effect on the PPV but substantially lowered the number of events. Of the 33,603 eligible pneumonia events identified in secondary care, only 11,445 were recorded in primary care within 42 days, representing a sensitivity of 34.1% (95% CI 33.6%-34.6%).</p><p><strong>Conclusions: </strong>Use of primary care pneumonia codes and associated clinical and treatment codes to determine pneumonia is not recommended due to significant levels of misdiagnosis and many hospitalised events failing to be recorded in primary care.</p>","PeriodicalId":45120,"journal":{"name":"Pneumonia","volume":"16 1","pages":"8"},"PeriodicalIF":6.8,"publicationDate":"2024-05-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11070075/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140855560","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Sex-dependent vulnerability for Wistar rats model following intranasal instillation with Klebsiella pneumoniae ATCC 43816 causing lobar pneumonia. 肺炎克雷伯菌 ATCC 43816 经鼻腔灌入导致大叶性肺炎的 Wistar 大鼠模型的易感性与性别有关。
IF 6.8 Q1 RESPIRATORY SYSTEM Pub Date : 2024-03-25 DOI: 10.1186/s41479-024-00126-y
Patrick Hervé Diboue Betote, Esther Del Florence Ndedi Moni, Sonia Raïssa Gayap Matchuenkam, Sandrine Suzanne Bayengue Beack, Rodrigue Fifen, Raogo Ouedraogo, Gabriel A Agbor, Rasmané Semde, Nga Nnanga, Maximilienne Ascension Nyegue

Background: Klebsiella pneumoniae has become one of the major threats to public health as it causes nosocomial and community-acquired infections like lobar pneumonia. This infection causes acute inflammation in the lung, characterized by the recruitment of polymorphonuclear cells, generating free radicals, and decreasing the endogenous antioxidant balance system. Many experimental studies have focused on the induction, progression and resolution of infection up to its peak, but these documented processes remain highly random and their sex dependence un-elicited. These fluctuations of physiopathological parameters would impact disease progression depending on the animal's model and bacterial strain used. The present study investigated the sex-dependent vulnerability of Wistar rats to K. pneumoniae ATCC 43816 lobar pneumonia induced by the intranasal instillation method.

Methods: Experimental pneumonia was induced by K. pneumoniae ATCC 43816 in male and female Wistar rats following intranasal instillation. The physiopathogenesis of the disease was studied by bacteriological and histopathological exams, histomorphometric analysis of the blood and/or lung tissue, and body weight loss in infected animals. In addition, the overall severity of lesions was determined by the total score obtained by averaging the individual scores from the same group of animals.

Results: The K. pneumoniae ATCC 43816 strain showed inoculation dose-, incubation time of the disease- and sex-dependent- differences in its ability to induce lobar pneumonia. Evaluation of different parameters showed that the disease peaked on day 15 post-inoculation, with more pathogenic effects on female rats. This observed sex-dependence difference in Wistar rats was mainly highlighted by the determined lethal dose 50 (LD50), bacterial load count in whole blood and lung tissues, body weight loss, inflammatory granulomas forming and diffuse alveolar damages. The pathogenicity was confirmed by scoring the severity of pathologic lesions of lung tissues.

Conclusions: The results obtained highlighted the gender-dependency in the physiopathogenesis processes of K. pneumoniae ATCC 43816 induced-lobar pneumonia, in Wistar rats. Female Wistar rats' susceptibility is useful in studying pathology and in preclinical trial investigations of new treatments for infectious pneumonia.

背景:肺炎克雷伯菌已成为公共卫生的主要威胁之一,因为它可引起大叶性肺炎等院内和社区获得性感染。这种感染会导致肺部急性炎症,其特征是多形核细胞的募集、自由基的产生以及内源性抗氧化平衡系统的降低。许多实验研究都关注感染的诱发、发展和消退,直至达到高峰,但这些记录在案的过程仍具有很大的随机性,其性别依赖性也未被激发。这些生理病理参数的波动会影响疾病的进展,这取决于动物模型和所用的细菌菌株。本研究调查了 Wistar 大鼠对通过鼻内灌注法诱导的 K. pneumoniae ATCC 43816 大叶性肺炎的性别依赖性:方法:用 K. pneumoniae ATCC 43816 通过鼻内灌注法诱导雄性和雌性 Wistar 大鼠发生实验性肺炎。通过细菌学和组织病理学检查、血液和/或肺组织的组织形态学分析以及受感染动物的体重减轻来研究该疾病的生理发病机制。此外,病变的总体严重程度由同组动物的单项评分平均值得出的总分决定:结果:肺炎克氏菌 ATCC 43816 株在诱发大叶性肺炎的能力上存在接种剂量、疾病潜伏时间和性别差异。对不同参数的评估表明,疾病在接种后第 15 天达到高峰,对雌性大鼠的致病作用更大。在 Wistar 大鼠身上观察到的这种性别依赖性差异主要体现在确定的致死剂量 50(LD50)、全血和肺组织中的细菌数量、体重减轻、炎性肉芽肿形成和弥漫性肺泡损伤。通过对肺组织病变的严重程度进行评分,确认了致病性:结论:研究结果表明,肺炎克氏菌 ATCC 43816 诱导的 Wistar 大鼠大叶性肺炎的生理发病过程与性别有关。雌性 Wistar 大鼠的易感性有助于病理学研究和传染性肺炎新疗法的临床前试验研究。
{"title":"Sex-dependent vulnerability for Wistar rats model following intranasal instillation with Klebsiella pneumoniae ATCC 43816 causing lobar pneumonia.","authors":"Patrick Hervé Diboue Betote, Esther Del Florence Ndedi Moni, Sonia Raïssa Gayap Matchuenkam, Sandrine Suzanne Bayengue Beack, Rodrigue Fifen, Raogo Ouedraogo, Gabriel A Agbor, Rasmané Semde, Nga Nnanga, Maximilienne Ascension Nyegue","doi":"10.1186/s41479-024-00126-y","DOIUrl":"10.1186/s41479-024-00126-y","url":null,"abstract":"<p><strong>Background: </strong>Klebsiella pneumoniae has become one of the major threats to public health as it causes nosocomial and community-acquired infections like lobar pneumonia. This infection causes acute inflammation in the lung, characterized by the recruitment of polymorphonuclear cells, generating free radicals, and decreasing the endogenous antioxidant balance system. Many experimental studies have focused on the induction, progression and resolution of infection up to its peak, but these documented processes remain highly random and their sex dependence un-elicited. These fluctuations of physiopathological parameters would impact disease progression depending on the animal's model and bacterial strain used. The present study investigated the sex-dependent vulnerability of Wistar rats to K. pneumoniae ATCC 43816 lobar pneumonia induced by the intranasal instillation method.</p><p><strong>Methods: </strong>Experimental pneumonia was induced by K. pneumoniae ATCC 43816 in male and female Wistar rats following intranasal instillation. The physiopathogenesis of the disease was studied by bacteriological and histopathological exams, histomorphometric analysis of the blood and/or lung tissue, and body weight loss in infected animals. In addition, the overall severity of lesions was determined by the total score obtained by averaging the individual scores from the same group of animals.</p><p><strong>Results: </strong>The K. pneumoniae ATCC 43816 strain showed inoculation dose-, incubation time of the disease- and sex-dependent- differences in its ability to induce lobar pneumonia. Evaluation of different parameters showed that the disease peaked on day 15 post-inoculation, with more pathogenic effects on female rats. This observed sex-dependence difference in Wistar rats was mainly highlighted by the determined lethal dose 50 (LD<sub>50</sub>), bacterial load count in whole blood and lung tissues, body weight loss, inflammatory granulomas forming and diffuse alveolar damages. The pathogenicity was confirmed by scoring the severity of pathologic lesions of lung tissues.</p><p><strong>Conclusions: </strong>The results obtained highlighted the gender-dependency in the physiopathogenesis processes of K. pneumoniae ATCC 43816 induced-lobar pneumonia, in Wistar rats. Female Wistar rats' susceptibility is useful in studying pathology and in preclinical trial investigations of new treatments for infectious pneumonia.</p>","PeriodicalId":45120,"journal":{"name":"Pneumonia","volume":"16 1","pages":"5"},"PeriodicalIF":6.8,"publicationDate":"2024-03-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10962189/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140207803","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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Pneumonia
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