cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22153879
title: Genetic analysis of infectious bronchitis virus (IBV) in vaccinated poultry populations over a period of 10 years

description: Infectious bronchitis virus (IBV) is an avian pathogen from the Coronavirus family causing major health issues in poultry flocks worldwide. Because of its negative impact on health, performance, and bird welfare, commercial poultry are routinely vaccinated by administering live attenuated virus. However, field strains are capable of rapid adaptation and may evade vaccine-induced immunity. We set out to describe dynamics within and between lineages and assess potential escape from vaccine-induced immunity. We investigated a large nucleotide sequence database of over 1700 partial sequences of the S1 spike protein gene collected from clinical samples of Dutch chickens submitted to the laboratory of Royal GD between 2011 and 2020. Relative frequencies of the two major lineages GI-13 (793B) and GI-19 (QX) did not change in the investigated period, but we found a succession of distinct GI-19 sublineages. Analysis of dN/dS ratio over all sequences demonstrated episodic diversifying selection acting on multiple sites, some of which overlap predicted N-glycosylation motifs. We assessed several measures that would indicate divergence from vaccine strains, both in the overall database and in the two major lineages. However, the frequency of vaccine-homologous lineages did not decrease, no increase in genetic variation with time was detected, and the sequences did not grow more divergent from vaccine sequences in the examined time window. Concluding, our results show sublineage turnover within the GI-19 lineage and we demonstrate episodic diversifying selection acting on the partial sequence, but we cannot confirm nor rule out escape from vaccine-induced immunity. <b>RESEARCH HIGHLIGHTS</b>Succession of GI-19 IBV variants in broiler populations.IBV lineages overrepresented in either broiler, or layer production chickens.Ongoing episodic selection at the IBV S1 spike protein gene sequence.Several positively selected codons coincident with N-glycosylation motifs. Succession of GI-19 IBV variants in broiler populations. IBV lineages overrepresented in either broiler, or layer production chickens. Ongoing episodic selection at the IBV S1 spike protein gene sequence. Several positively selected codons coincident with N-glycosylation motifs.
DOI: 10.6084/m9.figshare.22153879.v2
title: Genetic analysis of infectious bronchitis virus (IBV) in vaccinated poultry populations over a period of 10 years

description: Infectious bronchitis virus (IBV) is an avian pathogen from the Coronavirus family causing major health issues in poultry flocks worldwide. Because of its negative impact on health, performance, and bird welfare, commercial poultry are routinely vaccinated by administering live attenuated virus. However, field strains are capable of rapid adaptation and may evade vaccine-induced immunity. We set out to describe dynamics within and between lineages and assess potential escape from vaccine-induced immunity. We investigated a large nucleotide sequence database of over 1700 partial sequences of the S1 spike protein gene collected from clinical samples of Dutch chickens submitted to the laboratory of Royal GD between 2011 and 2020. Relative frequencies of the two major lineages GI-13 (793B) and GI-19 (QX) did not change in the investigated period, but we found a succession of distinct GI-19 sublineages. Analysis of dN/dS ratio over all sequences demonstrated episodic diversifying selection acting on multiple sites, some of which overlap predicted N-glycosylation motifs. We assessed several measures that would indicate divergence from vaccine strains, both in the overall database and in the two major lineages. However, the frequency of vaccine-homologous lineages did not decrease, no increase in genetic variation with time was detected, and the sequences did not grow more divergent from vaccine sequences in the examined time window. Concluding, our results show sublineage turnover within the GI-19 lineage and we demonstrate episodic diversifying selection acting on the partial sequence, but we cannot confirm nor rule out escape from vaccine-induced immunity. <b>RESEARCH HIGHLIGHTS</b>Succession of GI-19 IBV variants in broiler populations.IBV lineages overrepresented in either broiler, or layer production chickens.Ongoing episodic selection at the IBV S1 spike protein gene sequence.Several positively selected codons coincident with N-glycosylation motifs. Succession of GI-19 IBV variants in broiler populations. IBV lineages overrepresented in either broiler, or layer production chickens. Ongoing episodic selection at the IBV S1 spike protein gene sequence. Several positively selected codons coincident with N-glycosylation motifs.
DOI: 10.6084/m9.figshare.22153879.v1
title: Genetic analysis of infectious bronchitis virus (IBV) in vaccinated poultry populations over a period of 10 years

description: Infectious bronchitis virus (IBV) is an avian pathogen from the Coronavirus family causing major health issues in poultry flocks worldwide. Because of its negative impact on health, performance, and bird welfare, commercial poultry are routinely vaccinated by administering live attenuated virus. However, field strains are capable of rapid adaptation and may evade vaccine-induced immunity. We set out to describe dynamics within and between lineages and assess potential escape from vaccine-induced immunity. We investigated a large nucleotide sequence database of over 1700 partial sequences of the S1 spike protein gene collected from clinical samples of Dutch chickens submitted to the laboratory of Royal GD between 2011 and 2020. Relative frequencies of the two major lineages GI-13 (793B) and GI-19 (QX) did not change in the investigated period, but we found a succession of distinct GI-19 sublineages. Analysis of dN/dS ratio over all sequences demonstrated episodic diversifying selection acting on multiple sites, some of which overlap predicted N-glycosylation motifs. We assessed several measures that would indicate divergence from vaccine strains, both in the overall database and in the two major lineages. However, the frequency of vaccine-homologous lineages did not decrease, no increase in genetic variation with time was detected, and the sequences did not grow more divergent from vaccine sequences in the examined time window. Concluding, our results show sublineage turnover within the GI-19 lineage and we demonstrate episodic diversifying selection acting on the partial sequence, but we cannot confirm nor rule out escape from vaccine-induced immunity. RESEARCH HIGHLIGHTSSuccession of GI-19 IBV variants in broiler populations.IBV lineages overrepresented in either broiler, or layer production chickens.Ongoing episodic selection at the IBV S1 spike protein gene sequence.Several positively selected codons coincident with N-glycosylation motifs. Succession of GI-19 IBV variants in broiler populations. IBV lineages overrepresented in either broiler, or layer production chickens. Ongoing episodic selection at the IBV S1 spike protein gene sequence. Several positively selected codons coincident with N-glycosylation motifs.
DOI: 10.17029/d8f8d19d-0765-4cfe-bc73-ed5059d966ab
title: Dataset for 'Agile Software Requirements Engineering Challenges-Solutions'

description: This dataset has been used by the author for the journal article: Agile Software Requirements Engineering Challenges-Solutions - A Conceptual Framework from Systematic Literature Review. The data file is embargoed, awaiting article acceptance.
DOI: 10.17864/1947.000467
title: Time-lapse imaging datasets of Belousov-Zhabotinsky self-oscillating hydrogels under cyclic mechanical compressions

description: This dataset contains all relevant experimental datasets that were collected for Tunde Geher-Herczegh's PhD thesis 'A study of chemical-mechanical coupling in Belousov-Zhabotinsky self-oscillating hydrogels, towards the physical-chemical model of the heart', in the form of time-lapse image sequences of Belousov-Zhabotinsky self-oscillating hydrogels under cyclic mechanical compressions. 131 time-lapse series are included here that were captured by a USB microscope camera, in order to observe the time-dependent colour and size change of BZ hydrogels, while they were subjected to regular mechanical stimuli, i.e. cyclic compressions at various frequencies. Gel pieces of various sizes and geometries were tested in different catalyst-free BZ solutions, e.g. by changing the reactant concentrations, introducing additional salts, etc.
DOI: 10.5281/zenodo.7965761
title: Dataset of the Austrian test bed until 2050

description: This repository includes the data of the results presented in the paper "Designing a model for the cost-optimal decommissioning and refurbishment investment decision for gas networks: application on a real test bed in Austria until 2050". Further information can be found in the GitHub repository of the work.
DOI: 10.5281/zenodo.7965760
title: Dataset of the Austrian test bed until 2050

description: This repository includes the data of the results presented in the paper "Designing a model for the cost-optimal decommissioning and refurbishment investment decision for gas networks: application on a real test bed in Austria until 2050". Further information can be found in the GitHub repository of the work.
DOI: 10.5519/qd.hvq0jtzh
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (904 records)
DOI: 10.6084/m9.figshare.22707676
title: The sequence of mobile genetic elements (MGEs)

description: The insertion sequence (ISs) elements were aquired from ISfinder database.
DOI: 10.5281/zenodo.7984795
title: Seasonal supraglacial pond inventory at five study sites across Hindu Kush, Karakoram and Himalaya during 2017-22

description: This datasets include the seasonal maps of supraglacial ponds at five study sites (Hindu Kush, Karakoram, western Himalaya, central Himalaya and eastern Himalaya) during 2017-22 of Contrasting Distribution and Evolution of Supraglacial Ponds in the Hindu Kush Karakoram Himalaya Revealed by PlanetScope Imagery and Deep Learning submitted to Remote Sensing of Environment<em> </em>by Xu et al. The data is structured as follows: Once unzipped the data within the archive are five folders structured as follows: subfolder "Hindu Kush", "Karakoram", "Western Himalaya", "Central Himalaya" and "Eastern Himalaya", each subfolder includes shape files of seasonal inventory of supraglacial ponds delineated by deep learning and manual refinement.
DOI: 10.5281/zenodo.7984794
title: Seasonal supraglacial pond inventory at five study sites across Hindu Kush, Karakoram and Himalaya during 2017-22

description: This datasets include the seasonal maps of supraglacial ponds at five study sites (Hindu Kush, Karakoram, western Himalaya, central Himalaya and eastern Himalaya) during 2017-22 of Contrasting Distribution and Evolution of Supraglacial Ponds in the Hindu Kush Karakoram Himalaya Revealed by PlanetScope Imagery and Deep Learning submitted to Remote Sensing of Environment<em> </em>by Xu et al. The data is structured as follows: Once unzipped the data within the archive are five folders structured as follows: subfolder "Hindu Kush", "Karakoram", "Western Himalaya", "Central Himalaya" and "Eastern Himalaya", each subfolder includes shape files of seasonal inventory of supraglacial ponds delineated by deep learning and manual refinement.
DOI: 10.34740/kaggle/dsv/5810833
title: AutoXGB
DOI: 10.25345/c5j38kt5r
title: MassIVE MSV000092049 - 17 Pools containing 508 characterized Natural Products from different sources_Positive mode
title: Analzyed by Giovanni Andrea Vitale and Christian Geibel from Petras Lab. mode= positive stepped CE (25, 35, 45) Res MS1= 30K, MS2=15k Fragment= Top 5 ions
DOI: 10.25549/whit-c170-53250
title: Pennzoil trucks, Southern California, 1932

description: 8 photographs of Pennzoil trucks, with driver, Southern California, 1932. "Subject: Pennzoil trucks; Client: Pennzoil; Original Print Order: 1 ea[ch]; Size: 8x10; Finish: gl[ossy]; Year: 1932; Job: 8-8-36" -- on envelope front. "Operator's Report (Name): Joe; 8 Original Photographs - Size; Amount: 10.00; Extra Charges: Fonda" -- on envelope back.
DOI: 10.15468/dl.ct5epy
title: Occurrence Download

description: A dataset containing 164357 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is The Himalayan Uplands Plant database (HUP Version 1)"
 ]
}

 The dataset includes 164357 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0094569-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/whit-c170-53221
title: County Hospital, Metal Door & Trim Co., Los Angeles, CA, 1932

description: 8 photographs of construction at County Hospital, Metal Door & Trim Co., Los Angeles, CA, 1932. "Subject: County Hospital; Client: Metal Door & Trim Co.; Original Print Order: 1 ea[ch]; Re-Order: 2 ea[ch]; Size: 8 1/2x11, 8x10; Finish: gl[ossy]; Mount: linen; Year: 1932; Job: 8-24-103" -- on envelope front. "Operator's Report (Name): Frank; 8 Original Photographs - Size; Amount: 10.00; 2 Ounces of Flash Powder @ .85, 1.70" -- on envelope back.
DOI: 10.15468/dl.aph7j3
title: Occurrence Download

description: A dataset containing 236 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Macromitrium gymnostomum Sull. & Lesq."
 ]
}

 The dataset includes 236 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0094572-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/whit-c170-108168
title: Creek and road with palm trees and stone wall, Southern California, 1938

description: 7 photographs of a row of palm trees on both sides of a road, a creek through a forest, and a stone wall, California, 1938 April.
DOI: 10.15468/dl.mb30c1
title: Occurrence Download

description: A dataset containing 6999 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lejeunea cavifolia (Ehrh.) Lindb.",
 "HasGeospatialIssue is false",
 "Geometry POLYGON((-40.34 31.08,-40.34 71.09,69.87 71.09,69.87 31.08,-40.34 31.08))"
 ]
}

 The dataset includes 6999 records from 102 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0094581-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/whit-c170-69361
title: Aerial photographs of Los Angeles Harbor, Los Angeles, CA, 1928

description: 27 aerial photographs of Los Angeles Harbor, Los Angeles, CA, 1928.
DOI: 10.15468/dl.4x76nu
title: Occurrence Download

description: A dataset containing 63754 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Alchemilla monticola Opiz)"
 ]
}

 The dataset includes 63754 records from 332 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005855-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.w7wdoa
title: Occurrence Download

description: A dataset containing 359 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Psarocolius montezuma (Lesson, 1830)",
 "Country is Mexico",
 "BasisOfRecord is Specimen"
 ]
}

 The dataset includes 359 records from 41 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0094583-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/whit-c170-101023
title: Tramp, USA, 1939

description: 32 photographs of a man in shabby clothes, living outside with his backpack, USA, 1939 November. In many of the images he is seen with a corncob pipe between his lips.
DOI: 10.15468/dl.z4z2ie
title: Occurrence Download

description: A dataset containing 28579 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "DatasetKey is Museo Argentino de Ciencias Naturales \"Bernardino Rivadavia\" (MACN). Arachnology National Collection (MACNAr)"
 ]
}

 The dataset includes 28579 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0094584-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/whit-c170-69366
title: Aerial photographs of Los Angeles Harbor, Los Angeles, CA, 1928

description: 27 aerial photographs of Los Angeles Harbor, Los Angeles, CA, 1928.
DOI: 10.15468/dl.im6seq
title: Occurrence Download

description: A dataset containing 1102 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Thraupis abbas (Deppe, 1830)",
 "Country is Mexico",
 "BasisOfRecord is Specimen"
 ]
}

 The dataset includes 1102 records from 44 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0094585-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/whit-c170-69378
title: Aerial photographs of Los Angeles Harbor, Los Angeles, CA, 1928

description: 27 aerial photographs of Los Angeles Harbor, Los Angeles, CA, 1928.
DOI: 10.25549/whit-c170-69367
title: Aerial photographs of Los Angeles Harbor, Los Angeles, CA, 1928

description: 27 aerial photographs of Los Angeles Harbor, Los Angeles, CA, 1928.
DOI: 10.15468/dl.jigmc3
title: Occurrence Download

description: A dataset containing 1401 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Campylorhynchus zonatus (Lesson, 1832)",
 "Country is Mexico",
 "BasisOfRecord is Specimen"
 ]
}

 The dataset includes 1401 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0094590-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/whit-c170-101020
title: Tramp, USA, 1939

description: 32 photographs of a man in shabby clothes, living outside with his backpack, USA, 1939 November. In many of the images he is seen with a corncob pipe between his lips.
DOI: 10.25549/whit-c170-107851
title: Football, Manual Arts vs. Marshall, Los Angeles, Calif., 1937

description: 13 photographs of a football game in the Los Angeles Memorial Coliseum, Los Angeles, California, 1937 November. "Football, Manual Arts [High School] vs. [John] Marshall [High School] for city championship - score Manual 33, Marshall 7" -- on envelope. Editor's note: the final score for Manual arts was 34.
DOI: 10.15468/dl.oiffjc
title: Occurrence Download

description: A dataset containing 9923 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Wolffia arrhiza (L.) Horkel ex Wimm."
 ]
}

 The dataset includes 9923 records from 111 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0094604-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/whit-c170-101027
title: Tramp, USA, 1939

description: 32 photographs of a man in shabby clothes, living outside with his backpack, USA, 1939 November. In many of the images he is seen with a corncob pipe between his lips.
DOI: 10.15468/dl.qbf0eo
title: Occurrence Download

description: A dataset containing 275 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Panthera onca (Linnaeus, 1758)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "BasisOfRecord is Specimen"
 ]
}

 The dataset includes 275 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0094611-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/whit-c170-14657
title: Pouring hot steel, Southern California, 1930

description: 5 photographs of men pouring hot steel, Southern California, 1930. "Subject: pouring hot steel; Client: Whittington; Classifications: I. steel; Re-order: 1 ea[ch], 1#3; Size: 8x10; Finish: gl[ossy]; Year: 1930; Job: 03-11-84" -- on envelope.
DOI: 10.15468/dl.40vehp
title: Occurrence Download

description: A dataset containing 3800 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Polytrichum juniperinum Hedw.",
 "HasGeospatialIssue is false",
 "Geometry POLYGON((-67.5 -56.944974,-52.03125 -56.559482,-45 -48.922499,-38.671874 -39.909736,-31.640625 -26.431228,-27.421875 -11.178401,-33.75 4.214943,-44.296874 15.961329,-51.328125 29.535229,-46.40625 39.909736,-47.109375 48.922499,-50.625 54.977613,-39.375 58.447732,-32.34375 62.267922,-31.640625 65.946471,-23.203125 68.911004,-18.984375 71.965387,-64.6875 71.746431,-90 71.524909,-120.9375 71.524909,-145.546875 71.524909,-166.640625 71.524909,-170.15625 67.067433,-167.34375 61.938950,-168.046875 56.170022,-153.984375 48.922499,-142.734375 34.885930,-137.8125 17.308687,-125.859375 3.513421,-111.796875 -10.487811,-100.546875 -26.431228,-98.4375 -37.160316,-96.328125 -46.073230,-90 -52.482780,-78.046875 -55.776573,-67.5 -56.944974))",
 "HasCoordinate is true",
 "BasisOfRecord is Specimen"
 ]
}

 The dataset includes 3800 records from 54 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0094612-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/whit-c170-14665
title: Store buildings - North Figueroa Street and Boston Street and on La Brea Avenue, Swanfeldt Tent and Awning Co., Los Angeles, CA, 1930

description: 3 photographs of store buildings - North Figueroa Street and Boston Street and on La Brea Avenue, Swanfeldt Tent and Awning Co., Los Angeles, CA, 1930. "Subject: Store b[ui]ld[in]gs - Figueroa & Boston and on La Brea; Agency: Waters & McLeod, Jeffries; Client: Swanfelt[sic] Tent & Awning Co.; Original print order: 1 ea[ch]; Size: 8x10; Finish: gl[ossy]; Year: 1930; Job: 3-11-93" -- on envelope front. "Extra charges: Jeffries; Original photographs-Size: 2, 1, 8x10, In City, 3.00, (Out of City 15 miles), 2.00, same job different locations; Operator's report (Name): Joe - Davey" -- on envelope back.
DOI: 10.25549/whit-c170-100224
title: Dick Whittington Photography Collection, 1924-1987
DOI: 10.15468/dl.374pzr
title: Occurrence Download

description: A dataset containing 832 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Giraffa camelopardalis (Linnaeus, 1758)"
 ]
}

 The dataset includes 832 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0094613-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/whit-c170-106850
title: Tennis L. A. Club, Los Angeles, Calif., 1937

description: 16 photographs of a tennis match, Los Angeles, California, 1937 October. The scoreboard reads "Charles E. Hare, John Van Ryn v. Henner Henkel, C. Gene Mako."
DOI: 10.15468/dl.lbdhra
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anolis alvarezdeltoroi Nieto Montes De Oca, 1996"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0094617-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.