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Standardized practices for RNA diagnostics using clinically accessible specimens reclassifies 75% of putative splicing variants

Bournazos, Adam M. ; Riley, Lisa G. ; Bommireddipalli, Shobhana ; [et al.]

Elsevier BV ; 2022

In: Genetics in Medicine Vol. 24, No. 1 ( 2022-01), p. 130-145

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In: Genetics in Medicine, Elsevier BV, Vol. 24, No. 1 ( 2022-01), p. 130-145

Type of Medium: Online Resource

ISSN: 1098-3600

URL: Article

DOI: 10.1016/j.gim.2021.09.001

Language: English

Publisher: Elsevier BV

Publication Date: 2022

detail.hit.zdb_id: 2063504-7

SSG: 12

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B Cell Antigen Presentation in the Initiation of Follicular Helper T Cell and Germinal Center Differentiation

Barnett, Lisa G. ; Simkins, Helen M. A. ; Barnett, Burton E. ; [et al.]

The American Association of Immunologists ; 2014

In: The Journal of Immunology Vol. 192, No. 8 ( 2014-04-15), p. 3607-3617

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In: The Journal of Immunology, The American Association of Immunologists, Vol. 192, No. 8 ( 2014-04-15), p. 3607-3617

Abstract: High-affinity class-switched Abs and memory B cells are products of the germinal center (GC). The CD4+ T cell help required for the development and maintenance of the GC is delivered by follicular Th cells (TFH), a CD4+ Th cell subset characterized by expression of Bcl-6 and secretion of IL-21. The cellular interactions that mediate differentiation of TFH and GC B cells remain an important area of investigation. We previously showed that MHC class II (MHCII)–dependent dendritic cell Ag presentation is sufficient for the differentiation of a TFH intermediate (termed pre-TFH), characterized by Bcl-6 expression but lacking IL-21 secretion. In this article, we examine the contributions of MHCII Ag presentation by B cells to TFH differentiation and GC responses in several contexts. B cells alone do not efficiently prime naive CD4+ T cells or induce TFH after protein immunization; however, during lymphocytic choriomeningitis virus infection, B cells induce TFH differentiation despite the lack of effector CD4+ T cell generation. Still, MHCII+ dendritic cells and B cells cooperate for optimal TFH and GC B cell differentiation in response to both model Ags and viral infection. This study highlights the roles for B cells in both CD4+ T cell priming and TFH differentiation, and demonstrates that different APC subsets work in tandem to mediate the GC response.

Type of Medium: Online Resource

ISSN: 0022-1767 , 1550-6606

URL: Article

DOI: 10.4049/jimmunol.1301284

RVK:

XA 54100

RVK:

XA 10000

Language: English

Publisher: The American Association of Immunologists

Publication Date: 2014

detail.hit.zdb_id: 1475085-5

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Regulatory T Cells Occupy an Isolated Niche in the Intestine that Is Antigen Independent

Korn, Lisa L. ; Hubbeling, Harper G. ; Porrett, Paige M. ; [et al.]

Elsevier BV ; 2014

In: Cell Reports Vol. 9, No. 5 ( 2014-12), p. 1567-1573

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In: Cell Reports, Elsevier BV, Vol. 9, No. 5 ( 2014-12), p. 1567-1573

Type of Medium: Online Resource

ISSN: 2211-1247

URL: Article

DOI: 10.1016/j.celrep.2014.11.006

Language: English

Publisher: Elsevier BV

Publication Date: 2014

detail.hit.zdb_id: 2649101-1

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Asymmetric B Cell Division in the Germinal Center Reaction

Barnett, Burton E. ; Ciocca, Maria L. ; Goenka, Radhika ; [et al.]

American Association for the Advancement of Science (AAAS) ; 2012

In: Science Vol. 335, No. 6066 ( 2012-01-20), p. 342-344

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In: Science, American Association for the Advancement of Science (AAAS), Vol. 335, No. 6066 ( 2012-01-20), p. 342-344

Abstract: Lifelong antibody responses to vaccination require reorganization of lymphoid tissue and dynamic intercellular communication called the germinal center reaction. B lymphocytes undergo cellular polarization during antigen stimulation, acquisition, and presentation, which are critical steps for initiating humoral immunity. Here, we show that germinal center B lymphocytes asymmetrically segregate the transcriptional regulator Bcl6, the receptor for interleukin-21, and the ancestral polarity protein atypical protein kinase C to one side of the plane of division, generating unequal inheritance of fate-altering molecules by daughter cells. Germinal center B lymphocytes from mice with a defect in leukocyte adhesion fail to divide asymmetrically. These results suggest that motile cells lacking constitutive attachment can receive provisional polarity cues from the microenvironment to generate daughter cell diversity and self-renewal.

Type of Medium: Online Resource

ISSN: 0036-8075 , 1095-9203

URL: Article

DOI: 10.1126/science.1213495

RVK:

TA 1000

RVK:

WA 15000

Language: English

Publisher: American Association for the Advancement of Science (AAAS)

Publication Date: 2012

detail.hit.zdb_id: 128410-1

detail.hit.zdb_id: 2066996-3

detail.hit.zdb_id: 2060783-0

SSG: 11

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Table_8.xlsx

McClure, Michelle M. ; Haltuch, Melissa A. ; Willis-Norton, Ellen ; [et al.]

Frontiers Media SA ; 2023

In: Frontiers in Marine Science Vol. 10 ( 2023-2-21)

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In: Frontiers in Marine Science, Frontiers Media SA, Vol. 10 ( 2023-2-21)

Abstract: Understanding how abundance, productivity and distribution of individual species may respond to climate change is a critical first step towards anticipating alterations in marine ecosystem structure and function, as well as developing strategies to adapt to the full range of potential changes. Methods This study applies the NOAA (National Oceanic and Atmospheric Administration) Fisheries Climate Vulnerability Assessment method to 64 federally-managed species in the California Current Large Marine Ecosystem to assess their vulnerability to climate change, where vulnerability is a function of a species’ exposure to environmental change and its biological sensitivity to a set of environmental conditions, which includes components of its resiliency and adaptive capacity to respond to these new conditions. Results Overall, two-thirds of the species were judged to have Moderate or greater vulnerability to climate change, and only one species was anticipated to have a positive response. Species classified as Highly or Very Highly vulnerable share one or more characteristics including: 1) having complex life histories that utilize a wide range of freshwater and marine habitats; 2) having habitat specialization, particularly for areas that are likely to experience increased hypoxia; 3) having long lifespans and low population growth rates; and/or 4) being of high commercial value combined with impacts from non-climate stressors such as anthropogenic habitat degradation. Species with Low or Moderate vulnerability are either habitat generalists, occupy deep-water habitats or are highly mobile and likely to shift their ranges. Discussion As climate-related changes intensify, this work provides key information for both scientists and managers as they address the long-term sustainability of fisheries in the region. This information can inform near-term advice for prioritizing species-level data collection and research on climate impacts, help managers to determine when and where a precautionary approach might be warranted, in harvest or other management decisions, and help identify habitats or life history stages that might be especially effective to protect or restore.

Type of Medium: Online Resource

ISSN: 2296-7745

URL: Article

DOI: 10.3389/fmars.2023.1103767

DOI: 10.3389/fmars.2023.1103767.s001

DOI: 10.3389/fmars.2023.1103767.s002

DOI: 10.3389/fmars.2023.1103767.s003

DOI: 10.3389/fmars.2023.1103767.s004

DOI: 10.3389/fmars.2023.1103767.s005

DOI: 10.3389/fmars.2023.1103767.s006

DOI: 10.3389/fmars.2023.1103767.s007

DOI: 10.3389/fmars.2023.1103767.s008

DOI: 10.3389/fmars.2023.1103767.s009

DOI: 10.3389/fmars.2023.1103767.s010

DOI: 10.3389/fmars.2023.1103767.s011

DOI: 10.3389/fmars.2023.1103767.s012

DOI: 10.3389/fmars.2023.1103767.s013

Language: Unknown

Publisher: Frontiers Media SA

Publication Date: 2023

detail.hit.zdb_id: 2757748-X

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Recommendations for quantifying and reducing uncertainty in climate projections of species distributions

Brodie, Stephanie ; Smith, James A. ; Muhling, Barbara A. ; [et al.]

Wiley ; 2022

In: Global Change Biology Vol. 28, No. 22 ( 2022-11), p. 6586-6601

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In: Global Change Biology, Wiley, Vol. 28, No. 22 ( 2022-11), p. 6586-6601

Abstract: Projecting the future distributions of commercially and ecologically important species has become a critical approach for ecosystem managers to strategically anticipate change, but large uncertainties in projections limit climate adaptation planning. Although distribution projections are primarily used to understand the scope of potential change—rather than accurately predict specific outcomes—it is nonetheless essential to understand where and why projections can give implausible results and to identify which processes contribute to uncertainty. Here, we use a series of simulated species distributions, an ensemble of 252 species distribution models, and an ensemble of three regional ocean climate projections, to isolate the influences of uncertainty from earth system model spread and from ecological modeling. The simulations encompass marine species with different functional traits and ecological preferences to more broadly address resource manager and fishery stakeholder needs, and provide a simulated true state with which to evaluate projections. We present our results relative to the degree of environmental extrapolation from historical conditions, which helps facilitate interpretation by ecological modelers working in diverse systems. We found uncertainty associated with species distribution models can exceed uncertainty generated from diverging earth system models (up to 70% of total uncertainty by 2100), and that this result was consistent across species traits. Species distribution model uncertainty increased through time and was primarily related to the degree to which models extrapolated into novel environmental conditions but moderated by how well models captured the underlying dynamics driving species distributions. The predictive power of simulated species distribution models remained relatively high in the first 30 years of projections, in alignment with the time period in which stakeholders make strategic decisions based on climate information. By understanding sources of uncertainty, and how they change at different forecast horizons, we provide recommendations for projecting species distribution models under global climate change.

Type of Medium: Online Resource

ISSN: 1354-1013 , 1365-2486

URL: Issue

URL: Article

DOI: 10.1111/gcb.v28.22

DOI: 10.1111/gcb.16371

Language: English

Publisher: Wiley

Publication Date: 2022

detail.hit.zdb_id: 2020313-5

SSG: 12

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Cutting Edge: Conditional MHC Class II Expression Reveals a Limited Role for B Cell Antigen Presentation in Primary and Secondary CD4 T Cell Responses

Archambault, Angela S. ; Carrero, Javier A. ; Barnett, Lisa G. ; [et al.]

The American Association of Immunologists ; 2013

In: The Journal of Immunology Vol. 191, No. 2 ( 2013-07-15), p. 545-550

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In: The Journal of Immunology, The American Association of Immunologists, Vol. 191, No. 2 ( 2013-07-15), p. 545-550

Abstract: The activation, differentiation, and subsequent effector functions of CD4 T cells depend on interactions with a multitude of MHC class II (MHCII)–expressing APCs. To evaluate the individual contribution of various APCs to CD4 T cell function, we have designed a new murine tool for selective in vivo expression of MHCII in subsets of APCs. Conditional expression of MHCII in B cells was achieved using a cre-loxP approach. After i.v. or s.c. priming, partial proliferation and activation of CD4 T cells was observed in mice expressing MHCII only by B cells. Restricting MHCII expression to B cells constrained secondary CD4 T cell responses in vivo, as demonstrated in a CD4 T cell–dependent model of autoimmunity, experimental autoimmune encephalomyelitis. These results highlight the limitations of B cell Ag presentation during initiation and propagation of CD4 T cell function in vivo using a novel system to study individual APCs by the conditional expression of MHCII.

Type of Medium: Online Resource

ISSN: 0022-1767 , 1550-6606

URL: Article

DOI: 10.4049/jimmunol.1201598

RVK:

XA 54100

RVK:

XA 10000

Language: English

Publisher: The American Association of Immunologists

Publication Date: 2013

detail.hit.zdb_id: 1475085-5

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Cutting Edge: Dendritic Cell-Restricted Antigen Presentation Initiates the Follicular Helper T Cell Program but Cannot Complete Ultimate Effector Differentiation

Goenka, Radhika ; Barnett, Lisa G. ; Silver, Jonathan S. ; [et al.]

The American Association of Immunologists ; 2011

In: The Journal of Immunology Vol. 187, No. 3 ( 2011-08-01), p. 1091-1095

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In: The Journal of Immunology, The American Association of Immunologists, Vol. 187, No. 3 ( 2011-08-01), p. 1091-1095

Abstract: Follicular helper T (TFH) cells are critical for germinal center (GC) formation. The processes that drive their generation and effector potential remain unclear. In this study, we define requirements for MHC class II APCs in murine TFH cell formation by either transiently ablating or restricting Ag presentation to dendritic cells (DCs). We find that cognate interactions with DCs are necessary and sufficient to prime CD4+ T cells toward a CXCR5+ICOS+Bcl6+ TFH cell intermediate. However, in the absence of additional APCs, these TFH cells fail to produce IL-21. Furthermore, in vitro priming of naive T cells by B cells engenders optimal production of IL-21, which induces a GC B cell transcriptional profile. These results support a multistep model for effector TFH cell priming and GC initiation, in which DCs are necessary and sufficient to induce a TFH cell intermediate that requires additional interactions with distinct APCs for full effector function.

Type of Medium: Online Resource

ISSN: 0022-1767 , 1550-6606

URL: Article

DOI: 10.4049/jimmunol.1100853

RVK:

XA 54100

RVK:

XA 10000

Language: English

Publisher: The American Association of Immunologists

Publication Date: 2011

detail.hit.zdb_id: 1475085-5

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Convalescent plasma in patients admitted to hospital with COVID-19 (RECOVERY): a randomised controlled, open-label, platform trial

Abani, Obbina ; Abbas, Ali ; Abbas, Fatima ; [et al.]

Elsevier BV ; 2021

In: The Lancet Vol. 397, No. 10289 ( 2021-05), p. 2049-2059

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In: The Lancet, Elsevier BV, Vol. 397, No. 10289 ( 2021-05), p. 2049-2059

Type of Medium: Online Resource

ISSN: 0140-6736

URL: Article

DOI: 10.1016/S0140-6736(21)00897-7

RVK:

XA 10000

Language: English

Publisher: Elsevier BV

Publication Date: 2021

detail.hit.zdb_id: 2067452-1

detail.hit.zdb_id: 3306-6

detail.hit.zdb_id: 1476593-7

SSG: 5,21

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Tocilizumab in patients admitted to hospital with COVID-19 (RECOVERY): a randomised, controlled, open-label, platform trial

Abani, Obbina ; Abbas, Ali ; Abbas, Fatima ; [et al.]

Elsevier BV ; 2021

In: The Lancet Vol. 397, No. 10285 ( 2021-05), p. 1637-1645

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In: The Lancet, Elsevier BV, Vol. 397, No. 10285 ( 2021-05), p. 1637-1645

Type of Medium: Online Resource

ISSN: 0140-6736

URL: Article

DOI: 10.1016/S0140-6736(21)00676-0

RVK:

XA 10000

Language: English

Publisher: Elsevier BV

Publication Date: 2021

detail.hit.zdb_id: 2067452-1

detail.hit.zdb_id: 3306-6

detail.hit.zdb_id: 1476593-7

SSG: 5,21

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