KBART Phase III: Unresolved questions

During the “NISO update” session at the NISO Plus 2021 conference, which took place online due to the COVID-19 pandemic, members of the KBART (Knowledge Base and Related Tools) Standing Committee presented their plans and work toward KBART Phase III, a revision of the KBART Recommended Practice. In an interactive breakout session, they sought input from attendees on how KBART is being used and what new content types it should support. Presenters from the KBART Standing Committee were Noah Levin (Independent Professional), Stephanie Doellinger (OCLC, Inc.), Robert Heaton (Utah State University), and Andrée Rathemacher (University of Rhode Island). Assisting them in preparing the presentation were Jason Friedman (Canadian Research Knowledge Network), Sheri Meares (EBSCO Information Services), Benjamin Johnson (ProQuest), Elif Eryilmaz-Sigwarth (Springer Nature), and Nettie Lagace (NISO)

KBART Unresolved Questions

Presentation, KBART Unresolved Questions , presented at the NISO Plus 2021, Global Conversations, Global Connections conference on February 23, 2021. The conference was held online due to COVID-19. ------- This session was part of the NISO Update: NISO projects are numerous, diverse in output, coverage, and participation, and ACTIVE! This session will support presentations from a small selection of current efforts, all at different stages of their lifecycles. Following project presentations, we will move into breakout rooms for more direct project Q&A and discussions. Speakers: Stephanie Doellinger, Robert Heaton, Noah Levin, Andrée Rathemacher ------- The KBART presentation included an introduction with presentation slides and a breakout discussion using an interactive board on the EasyRetro.io platform. The main session had approximately 140 attendees, and the KBART breakout room had about 33. The link leads to session description at Sched website at https://sched.co/gKIA. A recording of the presentation is available here: https://nisoplus2021.cadmore.media/session/47?passcode=gKIA Additional files include a PDF of presentation slides, the EasyRetro board in multiple formats, screenshots of posts on https://discourse.niso.org/ and Twitter related to the session, and a PDF printout of the entire NISO Plus 2021 conference program schedule

Determination of Stromal Signatures in Breast Carcinoma

Many soft tissue tumors recapitulate features of normal connective tissue. We hypothesize that different types of fibroblastic tumors are representative of different populations of fibroblastic cells or different activation states of these cells. We examined two tumors with fibroblastic features, solitary fibrous tumor (SFT) and desmoid-type fibromatosis (DTF), by DNA microarray analysis and found that they have very different expression profiles, including significant differences in their patterns of expression of extracellular matrix genes and growth factors. Using immunohistochemistry and in situ hybridization on a tissue microarray, we found that genes specific for these two tumors have mutually specific expression in the stroma of nonneoplastic tissues. We defined a set of 786 gene spots whose pattern of expression distinguishes SFT from DTF. In an analysis of DNA microarray gene expression data from 295 previously published breast carcinomas, we found that expression of this gene set defined two groups of breast carcinomas with significant differences in overall survival. One of the groups had a favorable outcome and was defined by the expression of DTF genes. The other group of tumors had a poor prognosis and showed variable expression of genes enriched for SFT type. Our findings suggest that the host stromal response varies significantly among carcinomas and that gene expression patterns characteristic of soft tissue tumors can be used to discover new markers for normal connective tissue cells

Water quality from an 80 ha agricultural watershed in southern Quebec/Qualité de l'eau d'un bassin versant agricole de 80 ha dans le sud-est du Québec

Abstract For a period of two years (June 1991 to May 1993), a gauging station was installed at an 80 ha watershed outlet to measure streamflow and water quality parameters (pH, temperature, NO3-N, NH4-N, orthophosphate, and sediment). The 378 mm of runoff during the first year and 452 mm during the second year produced total sediment yields of 46,1 t (0,54 t ha*1) and 49,5 t (0,59 t ha-1), respectively. Of these totals 93 % and 95 % was composed of suspended sediment. The snowmelt season contributed 61 % of the suspended sediment load in the first year, and 69 % in the second year. The majority of bedload was also produced during the snowmelt period. Temporal NO3-N losses were related to both seasonal fluctuations of discharge and nitrate concentrations. Mean annual NO3-N load at the watershed outlet was 1 1 kg ha1. Seventy-six percent of this loss was concentrated in the pre/post winter periods. (October- November/March- April). The mean monthly NO3-N loss during the dormant season was higher with 111,1 kg (range of 8.5 to 310,7 kg) and 18,1 kg with a range of 4,2 kg to 33,5 kg during the growing season.Résumé Sur une période de deux années (Juin 1991 à Mai 1993), une station de jaugeage a été installée à l'exu- toire d'un bassin versant agricole de 80 ha pour mesurer les débits et différents paramètres de la qualité de l'eau (pH, température, azote nitrique et ammoniacal, orthophosphates et sédiments). Pour une lame d'eau annuelle raisselée de 378 mm (lors de la première année) et de 452 mm la deuxième année, les charges sédimentaires ont été respectivement de 46,1 1 et 49,5 t dont 93 et 95 % étaient sous forme de sédiments en suspension. La période de fonte des neiges a contribué entre 61 % et 69 % de la charge en suspension pour les deux années et c'est durant cette période que s'est produit la plus grande partie du charriage de fond. Les pertes spécifiques annuelles moyennes d'azote nitrique (N-N03) ont atteint 11 kg ha"1 dont 76 % provenaient des périodes pré/post hivernales (Octobre-Novembre/Mars- Avril). Durant la saison végétative, les pertes mensuelles de N-NO3 ont varié de 4,2 kg à 33,5 kg (moyenne 18,1 kg) alors qu'elles ont atteint des quantités beaucoup plus élevées entre 8,5 kg et 310,7 kg (moyenne 111,1 kg) pendant la période de dormance.Pesant Alain, Bouchkina Rachid, Salehi Farhad, Lagace Robert. Water quality from an 80 ha agricultural watershed in southern Quebec/Qualité de l'eau d'un bassin versant agricole de 80 ha dans le sud-est du Québec. In: Géomorphologie : relief, processus, environnement, Mars 1998, vol. 4, n°1. pp. 27-34

KBART (Knowledge Bases And Related Tools) - NISO Open Teleconference

This is a link to a recording of a National Information Standards Organization (NISO) Open Teleconference titled KBART (Knowledge Bases and Related Tools, which took place on November 15, 2021. There were 19 people in attendance. ==== From the NISO website: The NISO open teleconference session on Monday, November 15th at 3:00 PM Eastern time is open to everyone! and our topic will be will be KBART (KnowledgeBases And Related Tools). KBART recommends best practices for the communication of electronic resource title list and coverage data from content providers to knowledge base (KB) developers. KBART specifies file format, delivery mechanisms, and fields to include, and it applies to both serials and monographs. More information on the work, including the 2014 Recommended Practice, can be found at https://www.niso.org/standards-committees/kbart. KBART Standing Committee co-chair Andrée Rathemacher, Head of Acquisitions at the University of Rhode Island, and member Sheri Meares, Senior Director, KnowledgeBase at EBSCO will join the call to discuss the initiative and how the Standing Committee is managing its work, including tackling a KBART Phase III development process. KBART provides all parties in the information supply chain with straightforward guidance about metadata formatting-focused mainly on journal resources-to ensure the exchange of accurate metadata between content providers and knowledge base developers. The KBART Recommendations were first published in 2010 and updated in 2014. In the meantime, the products that use KB data have changed dramatically. KBs now, in addition to link resolution, also provide the foundation for electronic resource management systems (ERMs), are used in conjunction with COUNTER data, provide rights/holdings information to discovery systems, provide data to library catalogs, and other uses. The KBART Automation Recommended Practice was published in 2019, providing a means to transfer accurate, library-specific KBART-formatted holdings reports between content providers’ access control systems and knowledge bases, allowing knowledge base-powered systems to more accurately reflect content accessible at a particular institution and its unique holdings. Since the first Recommended Practice was issued, scores of publishers and content providers have endorsed KBART and demonstrated their commitment to good quality metadata provision. With implementation of the KBART recommendations, users can be assured that the providers\u27 metadata is trusted and has the required level of granularity without the burdensome task of title-by-title checking. ======== Included as supplemental files are: PDF printout of NISO website page advertising the Open Teleconference Included as supplemental files (suppressed from public view) are: Open Teleconference audio recording in MP4 format Email chain with invitation to speakers (10/20/2021) and list of questions to be asked (11/10/2021) NISO email announcement of Open Teleconference (11/11/2021) Thank-you email to speakers (11/15/2021

New process for reduction of polluting emissions in livestock buildings

International @ AIR+LRE:AGFInternational audienceIt is of prime importance to reduce the emissions of methane and N2O, whether they emanate from stationary sources such as livestock buildings. There are several methods for eliminating air pollutants, which can be grouped into two main categories. One category comprises separation-and-recovery techniques such as absorption or adsorption, and the other category comprises the so-called destruction techniques such as catalytic combustion or decompositon. These latter techniques are more effective when the pollutants are present in trace amounts, but this requires the use of heterogeneous catalysts. In livestock buildings, the concentration of N2O and CH4 emitted are not constant over a day or seasons too [1]. To achieve the pollutants abatement, a catalyst constituted by a mixture of adsorbent support and active phase is proposed. This catalytic system will be capable of trapping N2O and CH4 and activating oxidation or decomposition processes. This improved process effectiveness is achieved. The aim of this project is to develop a simple, economical technology for catalytic treatment of nitrous oxide (N2O) and methane (CH4) emissions produced inside farm buildings used for intensive livestock breeding

Targeted S5 RNA sequencing assay for the identification and direct association of common body fluids with DNA donors in mixtures

The evidentiary value of DNA profiles varies depending upon the context in which the DNA was found. Linking a DNA profile to a particular cellular phenotype in mixtures may aid in assessing its evidentiary relevance and value. We report the development of two dual-function high-resolution messenger RNA (mRNA) sequencing assays that can each identify the presence of 6 body fluids/tissues (blood, semen, saliva, vaginal secretions, menstrual blood, skin) and, via coding region SNPs (cSNPs) present in the body fluid–specific mRNA transcripts, directly associate particular body fluids with their specific DNA donors in mixtures. The original blood, semen, and saliva (BSS) assay contains 23 cSNPs for blood, semen, and saliva, while the expanded 6F (all 6 fluids/tissues) assay encompasses the BSS assay and also contains 23 additional cSNPs for vaginal secretions, menstrual blood, and skin. Software tools were developed to infer the identity of the body fluids present as well as providing the corresponding cSNP genotypes. Concomitant genomic DNA assays (BSS-d and 6F-d), required to genotype the same cSNPs from persons of interest/inferred contributors to the body fluid mixture, were also developed. Body fluid specificity was demonstrated by the ability to identify the body fluid origin of single-source and two-fluid admixtures. The discriminatory power (European Caucasians) for all body fluids is 0.957–0.997, with linkage disequilibrium considered. Reciprocal body fluid admixtures (mixture pairs with the same two donors but reversed body fluid types) were used to demonstrate the ability to identify the body fluid source of origin as well as associate the donor of each of the two fluids

In vivocontribution of nestin- and GLAST-lineage cells to adult hippocampal neurogenesis

Radial glia‐like cells (RGCs) are the hypothesized source of adult hippocampal neurogenesis. However, the current model of hippocampal neurogenesis does not fully incorporate the in vivo heterogeneity of RGCs. In order to better understand the contribution of different RGC subtypes to adult hippocampal neurogenesis, we employed widely used transgenic lines (Nestin‐CreERT2 and GLAST::CreERT2 mice) to explore how RGCs contribute to neurogenesis under basal conditions and after stimulation and depletion of neural progenitor cells. We first used these inducible fate‐tracking transgenic lines to define the similarities and differences in the contribution of nestin‐ and GLAST‐lineage cells to basal long‐term hippocampal neurogenesis. We then explored the ability of nestin‐ and GLAST‐lineage RGCs to contribute to neurogenesis after experimental manipulations that either ablate neurogenesis (i.c.v. application of the anti‐mitotic AraC, cytosine‐β‐D‐arabinofuranoside) or stimulate neurogenesis (wheel running). Interestingly, in both ablation and stimulation experiments, labeled RGCs in GLAST::CreERT2 mice appear to contribute to neurogenesis, whereas RGCs in Nestin‐CreERT2 mice do not. Finally, using NestinGFP reporter mice, we expanded on previous research by showing that not all RGCs in the adult dentate gyrus subgranular zone express nestin, and therefore RGCs are antigenically heterogeneous. These findings are important for the field, as they allow appropriately conservative interpretation of existing and future data that emerge from these inducible transgenic lines. These findings also raise important questions about the differences between transgenic driver lines, the heterogeneity of RGCs, and the potential differences in progenitor cell behavior between transgenic lines. As these findings highlight the possible differences in the contribution of cells to long‐term neurogenesis in vivo, they indicate that the current models of hippocampal neurogenesis should be modified to include RGC lineage heterogeneit

Whole-Gene Duplication of PCSK9 as a Novel Genetic Mechanism for Severe Familial Hypercholesterolemia

Background: Familial hypercholesterolemia (FH) is a common genetic disorder of severely elevated low-density lipoprotein (LDL) cholesterol, characterized by premature atherosclerotic cardiovascular disease. Although copy number variations (CNVs) are a large-scale mutation-type capable of explaining FH cases, they have been, to date, assessed only in the LDLR gene. Here, we performed novel CNV screening in additional FH-associated genes using a next-generation sequencing-based approach. Methods: In 704 patients with FH, we sequenced FH-associated genes APOB, PCSK9, LDLRAP1, APOE, STAP1, LIPA, and ABCG5/8 using our LipidSeq targeted next-generation sequencing panel. Bioinformatic tools were applied to LipidSeq data for CNV screening, and identified CNVs were validated using whole-exome sequencing and microarray-based copy number analyses. Results: We identified a whole-gene duplication of PCSK9 in 2 unrelated Canadian FH index cases; this PCSK9 CNV was also found to cosegregate with affected status in family members. Features in affected individuals included severely elevated LDL cholesterol levels that were refractory to intensive statin therapy, pronounced clinical stigmata, premature cardiovascular events, and a plasma PCSK9 of approximately 5000 ng/mL in 1 index case. We found no CNVs in APOB, LDLRAP1, APOE, STAP1, LIPA, and ABCG5/8 in our cohort of 704 FH individuals. Conclusions: Here, we report the first description of a CNV affecting the PCSK9 gene in FH. This finding is associated with a profound FH phenotype and the highest known plasma PCSK9 level reported in a human. This finding also has therapeutic relevance, as elevated PCSK9 levels may limit the efficacy of high-dose statin therapy and also PCSK9 inhibition

Ancestry inference of 96 population samples using microhaplotypes

Microhaplotypes have become a new type of forensic marker with a great ability to identify and deconvolute mixtures because massively parallel sequencing (MPS) allows the alleles (haplotypes) of the multi-SNP loci to be determined directly for an individual. As originally defined, a microhaplotype locus is a short segment of DNA with two or more SNPs defining three or more haplotypes. The length is short enough, less than about 300 bp, that the read length of current MPS technology can produce a phase-known sequence of each chromosome of an individual. As part of the discovery phase of our studies, data on 130 microhaplotype loci with estimates of haplotype frequency data on 83 populations have been published. To provide a better picture of global allele frequency variation, we have now tested 13 more populations for 65 of the microhaplotype loci from among those with higher levels of inter-population gene frequency variation, including 8 loci not previously published. These loci provide clear distinctions among 6 biogeographic regions and provide some information distinguishing up to 10 clusters of populations