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Article ; Online: Climate change-informed dietary modeling in Pacific cod

Matthew C. Rogers / Ron A. Heintz / Johanna J. Vollenweider / Ashwin Sreenivasan / Katharine B. Miller

PLoS ONE, Vol 18, Iss

Experimentally-derived effects of temperature and dietary quality on carbon and nitrogen stable isotope trophic discrimination factors

2023 Volume 12

Keywords	Medicine ; R ; Science ; Q
Language	English
Publishing date	2023-01-01T00:00:00Z
Publisher	Public Library of Science (PLoS)
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Climate change-informed dietary modeling in Pacific cod: Experimentally-derived effects of temperature and dietary quality on carbon and nitrogen stable isotope trophic discrimination factors.

Rogers, Matthew C / Heintz, Ron A / Vollenweider, Johanna J / Sreenivasan, Ashwin / Miller, Katharine B

PloS one

2023 Volume 18, Issue 12, Page(s) e0295564

Abstract: Stable isotope analysis is a powerful tool for dietary modeling and trophic ecology research. A crucial piece of information for isotopic dietary modeling is the accurate estimation of trophic discrimination factors (TDFs), or the isotopic offset between ...

Abstract	Stable isotope analysis is a powerful tool for dietary modeling and trophic ecology research. A crucial piece of information for isotopic dietary modeling is the accurate estimation of trophic discrimination factors (TDFs), or the isotopic offset between a consumer's tissue and its diet. In order to parameterize stable isotope dietary models for future climate scenarios, we investigated the effect of water temperature and dietary protein and lipid content on TDFs in juvenile Pacific cod (Gadus macrocephalus). Pacific cod are a commercially and ecologically important species, with stock numbers in the northeast Pacific recently having dropped by more than 70%. We tested four water temperatures (6, 8, 10, and 12°C) and two dietary regimens (low and high lipid content), representing a range of potential ocean temperature and prey quality scenarios, in order to determine carbon and nitrogen TDFs in juvenile Pacific cod. Additionally, we assessed dietary intake and proximate composition of the experimental fish in order to estimate consumption, assimilation, and retention of dietary nutrients. The results of this study suggest that dietary protein catabolism is a primary driver of nitrogen TDF variability in juvenile Pacific cod. Across all temperature treatments from 6 to 12°C, fish reared on the lower quality, lower lipid content diet had higher nitrogen TDFs. The mean TDFs for fish raised on the higher lipid, lower protein diet were +3.40 ‰ for nitrogen (Δ15N) and +0.36 ‰ for lipid-corrected carbon (Δ LC 13C). The mean TDFs for fish raised on the lower lipid, higher protein diet were +4.09 ‰ for nitrogen (Δ15N) and 0.00 ‰ for lipid-corrected carbon (Δ LC 13C). Lipid-corrected carbon isotope data showed that, regardless of temperature, fish consuming the lower lipid diet had essentially no trophic discrimination between diet and bulk tissues. We found no ecologically meaningful differences in TDFs due to water temperature across the 6°experimental range. The results of this experiment demonstrate that dietary quality, and more specifically the use of dietary protein for energetic needs, is a primary driver of trophic discrimination factors. The TDFs determined in this study can be applied to understanding trophic ecology in Pacific cod and closely related species under rapidly changing prey availability and ocean temperature conditions.
MeSH term(s)	Animals ; Carbon/metabolism ; Nitrogen Isotopes/analysis ; Nitrogen/metabolism ; Temperature ; Climate Change ; Carbon Isotopes/analysis ; Diet ; Dietary Proteins ; Water ; Lipids
Chemical Substances	Carbon (7440-44-0) ; Nitrogen Isotopes ; Nitrogen (N762921K75) ; Carbon Isotopes ; Dietary Proteins ; Water (059QF0KO0R) ; Lipids
Language	English
Publishing date	2023-12-07
Publishing country	United States
Document type	Journal Article
ZDB-ID	2267670-3
ISSN	1932-6203 ; 1932-6203
ISSN (online)	1932-6203
ISSN	1932-6203
DOI	10.1371/journal.pone.0295564
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: The salivary microbiota of patients with acute lower respiratory tract infection-A multicenter cohort study.

Rogers, Matthew B / Harner, Ashley / Buhay, Megan / Firek, Brian / Methé, Barbara / Morris, Alison / Palmer, Octavia M Peck / Promes, Susan B / Sherwin, Robert L / Southerland, Lauren / Vieira, Alexandre R / Yende, Sachin / Morowitz, Michael J / Huang, David T

PloS one

2024 Volume 19, Issue 1, Page(s) e0290062

Abstract: The human microbiome contributes to health and disease, but the oral microbiota is understudied relative to the gut microbiota. The salivary microbiota is easily accessible, underexplored, and may provide insight into response to infections. We sought to ...

Abstract	The human microbiome contributes to health and disease, but the oral microbiota is understudied relative to the gut microbiota. The salivary microbiota is easily accessible, underexplored, and may provide insight into response to infections. We sought to determine the composition, association with clinical features, and heterogeneity of the salivary microbiota in patients with acute lower respiratory tract infection (LRTI). We conducted a multicenter prospective cohort study of 147 adults with acute LRTI presenting to the emergency department of seven hospitals in three states (Pennsylvania, Michigan, and Ohio) between May 2017 and November 2018. Salivary samples were collected in the emergency department, at days 2-5 if hospitalized, and at day 30, as well as fecal samples if patients were willing. We compared salivary microbiota profiles from patients to those of healthy adult volunteers by sequencing and analyzing bacterial 16-rRNA. Compared to healthy volunteers, the salivary microbiota of patients with LRTI was highly distinct and strongly enriched with intestinal anaerobes such as Bacteroidaceae, Ruminococcaceae, and Lachnospiraceae (e.g., mean 10% relative abundance of Bacteroides vs < 1% in healthy volunteers). Within the LRTI population, COPD exacerbation was associated with altered salivary microbiota composition compared to other LRTI conditions. The largest determinant of microbiota variation within the LRTI population was geography (city in which the hospital was located).
MeSH term(s)	Adult ; Humans ; Prospective Studies ; Microbiota ; Respiratory Tract Infections/microbiology ; Gastrointestinal Microbiome ; Feces/microbiology ; RNA, Ribosomal, 16S/genetics
Chemical Substances	RNA, Ribosomal, 16S
Language	English
Publishing date	2024-01-11
Publishing country	United States
Document type	Multicenter Study ; Journal Article
ZDB-ID	2267670-3
ISSN	1932-6203 ; 1932-6203
ISSN (online)	1932-6203
ISSN	1932-6203
DOI	10.1371/journal.pone.0290062
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Article: Hepatitis B virus infection (HBV) and HIV-HBV coinfection among men who have sex with men, transgender women, and genderqueer individuals in Harare and Bulawayo Zimbabwe, 2019.

Breen, Robin W B / Parmley, Lauren E / Mapingure, Munyaradzi P / Chingombe, Innocent / Mugurungi, Owen / Musuka, Godfrey / Hakim, Avi J / Rogers, John H / Moyo, Brian / Samba, Chesterfield / Miller, Sophia S / Lamb, Matthew R / Harris, Tiffany G

Heliyon

2024 Volume 10, Issue 3, Page(s) e25790

Abstract: Objectives: To measure HIV and Hepatitis B virus (HBV) prevalence and associated risk behaviors ...

Abstract	Objectives: To measure HIV and Hepatitis B virus (HBV) prevalence and associated risk behaviors among men who have sex with men (MSM) and transgender women/genderqueer individuals (TGW/GQ) in Zimbabwe. Methods: We conducted a biobehavioral survey using respondent-driven sampling (RDS) among adult MSM and TGW/GQ in Harare and Bulawayo, Zimbabwe in 2019. Participants completed a questionnaire and underwent testing for HIV and HBV. Results: Overall, 1,510 (Harare: 694, Bulawayo 816) participants were enrolled and consented to testing; 3.8 % (58) tested positive for HBV, 22.5 % (339) tested positive for HIV, and 2.2 % (33) tested positive for both HIV and HBV. HBV prevalence was higher among participants with HIV compared to HIV-negative participants (9.7 % vs. 2.1 %, p < 0.0001). Overall, HBV prevalence was not statistically different between MSM and TGW/GQ (3.7 % vs 4.5 %, p = 0.49) nor between Harare and Bulawayo (3.3 % vs 4.3 %, p = 0.33). Conclusions: Our survey demonstrates the prevalence of HBV among MSM and TGW/GQ is lower than other estimates of HBV among MSM in Africa but remains high among our survey population living with HIV highlighting the need to expand HBV testing and treatment services, especially among people with HIV in Zimbabwe.
Language	English
Publishing date	2024-02-03
Publishing country	England
Document type	Journal Article
ZDB-ID	2835763-2
ISSN	2405-8440
ISSN	2405-8440
DOI	10.1016/j.heliyon.2024.e25790
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Article: Comparative Secretome Analyses of Toxigenic and Atoxigenic

Tancos, Matthew A / McMahon, Michael B / Garrett, Wesley M / Luster, Douglas G / Rogers, Elizabeth E

Phytopathology

2021 Volume 111, Issue 9, Page(s) 1530–1540

Abstract: ... ...

Abstract	Phytopathogenic
MeSH term(s)	Actinobacteria ; Actinomycetales ; Animals ; Nematoda ; Plant Diseases ; Secretome ; United States
Language	English
Publishing date	2021-10-20
Publishing country	United States
Document type	Journal Article
ZDB-ID	208889-7
ISSN	1943-7684 ; 0031-949X
ISSN (online)	1943-7684
ISSN	0031-949X
DOI	10.1094/PHYTO-11-20-0495-R
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Article ; Online: The salivary microbiota of patients with acute lower respiratory tract infection–A multicenter cohort study

Matthew B. Rogers / Ashley Harner / Megan Buhay / Brian Firek / Barbara Methé / Alison Morris / Octavia M. Peck Palmer / Susan B. Promes / Robert L. Sherwin / Lauren Southerland / Alexandre R. Vieira / Sachin Yende / Michael J. Morowitz / David T. Huang

PLoS ONE, Vol 19, Iss

2024 Volume 1

Keywords	Medicine ; R ; Science ; Q
Language	English
Publishing date	2024-01-01T00:00:00Z
Publisher	Public Library of Science (PLoS)
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Direct-ink-write cross-linkable bottlebrush block copolymers for on-the-fly control of structural color.

Jeon, Sanghyun / Kamble, Yash Laxman / Kang, Haisu / Shi, Jiachun / Wade, Matthew A / Patel, Bijal B / Pan, Tianyuan / Rogers, Simon A / Sing, Charles E / Guironnet, Damien / Diao, Ying

Proceedings of the National Academy of Sciences of the United States of America

2024 Volume 121, Issue 9, Page(s) e2313617121

Abstract: Additive manufacturing capable of controlling and dynamically modulating structures down to the nanoscopic scale remains challenging. By marrying additive manufacturing with self-assembly, we develop a UV (ultra-violet)-assisted direct ink write approach ...

Abstract	Additive manufacturing capable of controlling and dynamically modulating structures down to the nanoscopic scale remains challenging. By marrying additive manufacturing with self-assembly, we develop a UV (ultra-violet)-assisted direct ink write approach for on-the-fly modulation of structural color by programming the assembly kinetics through photo-cross-linking. We design a photo-cross-linkable bottlebrush block copolymer solution as a printing ink that exhibits vibrant structural color (i.e., photonic properties) due to the nanoscopic lamellar structures formed post extrusion. By dynamically modulating UV-light irradiance during printing, we can program the color of the printed material to access a broad spectrum of visible light with a single ink while also creating color gradients not previously possible. We unveil the mechanism of this approach using a combination of coarse-grained simulations, rheological measurements, and structural characterizations. Central to the assembly mechanism is the matching of the cross-linking timescale with the assembly timescale, which leads to kinetic trapping of the assembly process that evolves structural color from blue to red driven by solvent evaporation. This strategy of integrating cross-linking chemistry and out-of-equilibrium processing opens an avenue for spatiotemporal control of self-assembled nanostructures during additive manufacturing.
Language	English
Publishing date	2024-02-20
Publishing country	United States
Document type	Journal Article
ZDB-ID	209104-5
ISSN	1091-6490 ; 0027-8424
ISSN (online)	1091-6490
ISSN	0027-8424
DOI	10.1073/pnas.2313617121
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Article ; Online: Clinical Outcomes of Single-Stage Revision Anterior Cruciate Ligament Reconstruction Using a Fast-Setting Bone Graft Substitute.

Rogers, Joseph D / Adsit, Matthew H / Serbin, Philip A / Worcester, Katherine S / Firoved, Amanda B / Bonner, Kevin F

The journal of knee surgery

2023

Abstract: Revision anterior cruciate ligament reconstruction (ACLR) can be achieved in a single-stage or two-stage approach. Single-stage revisions have several advantages, including one less operation, decreased cost, and a quicker recovery for patients. Revision ...

Abstract	Revision anterior cruciate ligament reconstruction (ACLR) can be achieved in a single-stage or two-stage approach. Single-stage revisions have several advantages, including one less operation, decreased cost, and a quicker recovery for patients. Revision ACLR can be complicated by malpositioned or dilated bone tunnels, which makes a single-stage revision more challenging or sometimes necessitates a two-stage approach. The use of fast-setting bone graft substitutes (BGS) has been described in recent literature as a strategy to potentially help address this problem in the setting of single-stage revision ACLR. The aim of this study was to evaluate patient-reported clinical outcomes of patients who have undergone single-stage revision ACLR using fast-setting BGS to address prior malpositioned or dilated tunnels. A retrospective review was conducted of the first nine consecutive patients who had undergone single-stage revision ACLR using a fast-setting BGS by a single surgeon between May 2017 and February 2020 with a minimum of 2-year follow-up. Patient-reported clinical outcomes, including the International Knee Documentation Committee (IKDC) questionnaire, the Tegner Lysholm Knee Scoring Scale, patient satisfaction questions, and the need for additional surgery were evaluated for this group between 26 and 49 months postoperative. Of the nine patients eligible for inclusion, eight patients (88.9%) were evaluated, and one was lost to follow-up. At an average follow-up of 37.9 months (range: 27.8-55.7), the mean postoperative IKDC score was 75.0 ± 11.3, and the mean postoperative Tegner Lysholm Knee Score was 83.0 ± 17.6. None of the patients required additional revision surgery or experienced construct failure at the time of follow-up. Seven of eight respondents (87.5%) had their preoperative expectations met with the surgery, and 100% of patients stated they would have the surgery again. Single-stage revision ACLR using fast-setting BGS showed overall positive clinical outcomes for this pilot group of patients at a minimum 2-year follow-up. In select revision scenarios, these materials may be a valuable option to allow the filling of defects without compromising fixation or clinical outcomes.
Language	English
Publishing date	2023-12-04
Publishing country	Germany
Document type	Journal Article
ZDB-ID	2075354-8
ISSN	1938-2480 ; 1538-8506 ; 0899-7403
ISSN (online)	1938-2480
ISSN	1538-8506 ; 0899-7403
DOI	10.1055/s-0043-1777053
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Article ; Online: A six-gene expression toolbox for the glands, epithelium and chondrocytes in the mouse nasal cavity.

Wan, Yong / Rogers, Matthew B / Szabo-Rogers, Heather L

Gene expression patterns : GEP

2018 Volume 27, Page(s) 46–55

Abstract: The nose is the central feature of the amniote face. In adults, the nose is a structurally and functionally complex organ that consists of bone, cartilage, glands and ducts. In an ongoing expression screen in our lab, we found several novel markers for ... ...

Abstract	The nose is the central feature of the amniote face. In adults, the nose is a structurally and functionally complex organ that consists of bone, cartilage, glands and ducts. In an ongoing expression screen in our lab, we found several novel markers for specific tissues in the nasal region. Here, using in situ hybridization expression experiments, we report that Alx1, Ap-2β, Crispld1, Eya4, Moxd1, and Penk have tissue specific expression during murine nasal development. At E11.5, we observed that Alx1, Ap-2β, Crispld1, and Eya4 are expressed in the medial and lateral nasal prominences. We found that Moxd1 and Penk are expressed in the lateral nasal prominences. At E15.5, Alx1 is expressed in nasal septum. Ap-2β and Crispld1 are expressed in nasal glands and cartilages. Eya4 is expressed in olfactory epithelium. Intriguingly at E15.5 Moxd1 is expressed in all the nasal cartilage while the expression of Penk is restricted to chondrocytes contributing to the posterior nasal septum. The expression domains reported here suggest that these genes warrant functional studies to determine their role in nasal capsule morphogenesis.
MeSH term(s)	Animals ; Cells, Cultured ; Chondrocytes/cytology ; Chondrocytes/metabolism ; Embryo, Mammalian/cytology ; Embryo, Mammalian/metabolism ; Female ; Gene Expression Regulation, Developmental ; Homeodomain Proteins/metabolism ; Mice ; Nasal Cavity/cytology ; Nasal Cavity/metabolism ; Olfactory Mucosa/cytology ; Olfactory Mucosa/metabolism ; Trans-Activators/metabolism ; Transcription Factor AP-2/metabolism
Chemical Substances	Alx1 protein, mouse ; Eya4 protein, mouse ; Homeodomain Proteins ; Trans-Activators ; Transcription Factor AP-2
Language	English
Publishing date	2018
Publishing country	Netherlands
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	2058346-1
ISSN	1872-7298 ; 1567-133X
ISSN (online)	1872-7298
ISSN	1567-133X
DOI	10.1016/j.gep.2017.10.004
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Article ; Online: A pragmatic randomized clinical trial of multilevel interventions to improve adherence to lung cancer screening (The Larch Study): Study protocol.

Luce, Casey / Palazzo, Lorella / Anderson, Melissa L / Carter-Bawa, Lisa / Gao, Hongyuan / Green, Beverly B / Ralston, James D / Rogers, Kristine / Su, Yu-Ru / Tuzzio, Leah / Triplette, Matthew / Wernli, Karen J

Contemporary clinical trials

2024 Volume 140, Page(s) 107495

Abstract: Background: In real-world settings, low adherence to lung cancer screening (LCS) diminishes population-level benefits of reducing lung cancer mortality. We describe the Larch Study protocol, which tests the effectiveness of two patient-centered ... ...

Abstract	Background: In real-world settings, low adherence to lung cancer screening (LCS) diminishes population-level benefits of reducing lung cancer mortality. We describe the Larch Study protocol, which tests the effectiveness of two patient-centered interventions (Patient Voices Video and Stepped Reminders) designed to address barriers and improve annual LCS adherence. Methods: The Larch Study is a pragmatic randomized clinical trial conducted within Kaiser Permanente Washington. Eligible patients (target n = 1606) are aged 50-78 years with an index low-dose CT (LDCT) of the chest with negative or benign findings. With a 2 × 2 factorial-design, patients are individually randomized to 1 of 4 arms: video only, reminders only, both video and reminders, or usual care. The Patient Voices video addresses patient education needs by normalizing LCS, reminding patients when LCS is due, and encouraging social support. Stepped Reminders prompts primary care physicians to order patient's repeat screening LDCT and patients to schedule their scan. Intervention delivery is embedded within routine healthcare, facilitated by shared electronic health record components. Primary outcome is adherence to national LCS clinical guidelines, defined as repeat LDCT within 9-15 months. Patient-reported outcomes are measured via survey (knowledge of LCS, perception of stigma) approximately 8 weeks after index LDCT. Our mixed-methods formative evaluation includes process data, collected during the trial, and interviews with trial participants and stakeholders. Discussion: Results will fill an important scientific gap on multilevel interventions to increase annual LCS adherence and provide opportunities for spread and scale to other healthcare settings. Registration: Trial is registered at clinicaltrials.gov (#NCT05747443).
Language	English
Publishing date	2024-03-11
Publishing country	United States
Document type	Journal Article
ZDB-ID	2182176-8
ISSN	1559-2030 ; 1551-7144
ISSN (online)	1559-2030
ISSN	1551-7144
DOI	10.1016/j.cct.2024.107495
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