The long-term Illinois rivers fish population monitoring program 2014

This report presents a summary of those data collected during segment 26(2014-15) of the Long-term Illinois Rivers Fish Population Monitoring Program(LTEF), an annual survey executed by members of the Illinois Natural History Survey with funds administered by the U.S. Fish and Wildlife Service and the Illinois Department of Natural Resources. Sampling for the LTEF program was conducted on: six reaches of the Illinois River Waterway, six segments or pools of the Mississippi River, and navigable portions of the Iroquois and Kankakee Rives. In all segments of the LTEF program, all fish species collected were accurately identified, tallied, measured, and weighed. The catch rates of sportfish species were calculated as the number of individuals collected per hour (CPUEN± standard error). Structural indices [Proportional Size Distribution (PSD) and Relative Weight (Wr)] were also calculated for species of interest to regional managers. Catch rates and species richness varied greatly among all sampling locations and sampling periods. Emerald Shiners and Gizzard Shad comprised the majority of the individuals caught, and Silver Carp and Common Carp accounted for the greatest proportion of the biomass collected in most sampling areas of the survey. The analysis of CPUEN and PSD trends in sportfish populations sampled by the program may indicate inter-annual recruitment patterns in sportfish populations around the state. Both Shovelnose Sturgeon and Blue Catfish were the two species most commonly encountered in the gill net surveys.IDNR Division of Fisheries Project F-101-R, Segment 26unpublishednot peer reviewe

Long-term Survey and Assessment of Large-River Fishes in Illinois, 2015

This report presents a summary of those data collected during segment 26 (2014-15) of the Long-term Survey and Assessment of Large-River Fishes in Illinois (LTEF), an annual survey executed by members of the Illinois Natural History Survey with funds administered by the U.S. Fish and Wildlife Service and the Illinois Department of Natural Resources. Sampling for the LTEF program was conducted on: six reaches of the Illinois River Waterway, six segments or pools of the Mississippi River, and navigable portions of the Iroquois and Kankakee Rivers. In all segments of the LTEF program, all fish species collected were accurately identified, tallied, measured, and weighed. The catch rates of sportfish species were calculated as the number of individuals collected per hour (CPUEN± standard error). Structural indices [Proportional Size Distribution (PSD) and Relative Weight (Wr)] were also calculated for species of interest to regional managers. Catch rates and species richness varied greatly among all sampling locations and sampling periods. Emerald Shiners and Gizzard Shad comprised the majority of the individuals caught, and Silver Carpand Common Carp accounted for the greatest proportion of the biomass collected in most sampling areas of the survey. The analysis of CPUEN and PSD trends in sportfish populations sampled by the program may indicate inter-annual recruitment patterns or long-term trends in sportfish populations around the state. Shovelnose Sturgeon was the species most commonly encountered in the gill net surveys; sampling was substantially reduced during the 2015-2016 winter season relative to previous years due to moderate to major flooding during the majority of the field season.IDNR Division of Fisheries U.S. Fish & Wildlife Service F-101-R, Segment 27unpublishednot peer reviewe

Long-term Survey and Assessment of Large-River Fishes in Illinois, 2016

3EXECUTIVE SUMMARYThis report presents a summary of those data collected during segment 28(2016-17) of the Long-term Survey and Assessment of Large-River Fishes in Illinois(LTEF), an annual survey by members of the Illinois Natural History Survey,with funds administered by the U.S. Fish and Wildlife Service and the Illinois Department of Natural Resources. Sampling for the LTEF program was conducted on: six reaches of the Illinois River Waterway, foursegments or pools of the Mississippi River, and navigable portions of the Iroquois and Kankakee Rivers. In all segments of the LTEF program, all fish species collected were accurately identified, tallied, measured, and weighed. The catchrates of sportfishspecies were calculated as the number of individuals collected per hour (CPUEN± standard error).Structural indices [Proportional Size Distribution (PSD) and Relative Weight (Wr)] were also calculated for several species of interest to regional managers. Catch rates and species varied among all sampling locationsand sampling periods. Emerald Shiners and Gizzard Shad comprised the majority of the individuals caught, andSilverCarpand Common Carp accounted for the greatest proportion of the biomass collected in most sampling areasof the survey. Futureanalysis of CPUENand PSD trends in sportfish populations sampled by the program may indicate inter-annual recruitment patterns or/andlong-term trends in Illinois sportfish populations.Federal Aid in Sport Fish Restoration F-101-R, Segment 28Illinois Department of Natural Resources, Division of Fisheriesunpublishednot peer reviewe

High-resolution CT phenotypes in pulmonary sarcoidosis: a multinational Delphi consensus study

One view of sarcoidosis is that the term covers many different diseases. However, no classification framework exists for the future exploration of pathogenetic pathways, genetic or trigger predilections, patterns of lung function impairment, or treatment separations, or for the development of diagnostic algorithms or relevant outcome measures. We aimed to establish agreement on high-resolution CT (HRCT) phenotypic separations in sarcoidosis to anchor future CT research through a multinational two-round Delphi consensus process. Delphi participants included members of the Fleischner Society and the World Association of Sarcoidosis and other Granulomatous Disorders, as well as members' nominees. 146 individuals (98 chest physicians, 48 thoracic radiologists) from 28 countries took part, 144 of whom completed both Delphi rounds. After rating of 35 Delphi statements on a five-point Likert scale, consensus was achieved for 22 (63%) statements. There was 97% agreement on the existence of distinct HRCT phenotypes, with seven HRCT phenotypes that were categorised by participants as non-fibrotic or likely to be fibrotic. The international consensus reached in this Delphi exercise justifies the formulation of a CT classification as a basis for the possible definition of separate diseases. Further refinement of phenotypes with rapidly achievable CT studies is now needed to underpin the development of a formal classification of sarcoidosis

Large expert-curated database for benchmarking document similarity detection in biomedical literature search

Document recommendation systems for locating relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that cover a variety of research fields such that newly developed literature search techniques can be compared, improved and translated into practice. To overcome this bottleneck, we have established the RElevant LIterature SearcH consortium consisting of more than 1500 scientists from 84 countries, who have collectively annotated the relevance of over 180 000 PubMed-listed articles with regard to their respective seed (input) article/s. The majority of annotations were contributed by highly experienced, original authors of the seed articles. The collected data cover 76% of all unique PubMed Medical Subject Headings descriptors. No systematic biases were observed across different experience levels, research fields or time spent on annotations. More importantly, annotations of the same document pairs contributed by different scientists were highly concordant. We further show that the three representative baseline methods used to generate recommended articles for evaluation (Okapi Best Matching 25, Term Frequency-Inverse Document Frequency and PubMed Related Articles) had similar overall performances. Additionally, we found that these methods each tend to produce distinct collections of recommended articles, suggesting that a hybrid method may be required to completely capture all relevant articles. The established database server located at https://relishdb.ict.griffith.edu.au is freely available for the downloading of annotation data and the blind testing of new methods. We expect that this benchmark will be useful for stimulating the development of new powerful techniques for title and title/abstract-based search engines for relevant articles in biomedical research.Peer reviewe

Shocking results: assessing the injury rates of fishes from pulsed-DC electrofishing

Electrofishing is one of the most widely used methods to sample fishes in freshwater ecosystems. There was an early consensus that AC electrofishing was more injurious to fishes than DC electrofishing, but this was based on a relatively small number of studies. Since the late 1980’s, many studies have documented high injury rates of fishes from DC electrofishing. However, studies of injury from electrofishing are disproportionately skewed towards laboratory work on cool- and coldwater species and further investigation is needed on injury rates to fishes from DC electrofishing conducted in-situ with warm water species. My study assessed injury rates for seven species of fish in the Upper Mississippi River System (UMRS) from PDC boat electrofishing. I examined bluegill Lepomis macrochirus, channel catfish Ictalurus punctatus, freshwater drum Aplodinotus grunniens, largemouth bass Micropterus salmoides, gizzard shad Dorosoma cepedianum, common carp Cyprinus carpio and silver carp Hypophthalmichthys molitrix captured in the Mississippi and Illinois rivers from June 15th to October 31st, 2013 for evidence of spinal injuries from PDC boat electrofishing. Fishes were collected by electrofishing crews conducting routine sampling for two long-term monitoring programs. Of the seven species examined, silver carp and channel catfish were the only fishes that had injuries. Channel catfish had a 26% rate of spinal injury, and silver carp had an injury rate of over 62%. Injury rate for silver carp was significantly greater in the Illinois River (71%) compared with the Mississippi River (32%). Whereas Secchi depth, dissolved oxygen, and temperature were similar between the two rivers, conductivity was significantly higher on the Illinois River (724.82 ±21.14 µS/cm) than on the Mississippi River (422.19 ±30.37 µS/cm). Silver carp injury rate varied significantly with power output and conductivity, whereas channel catfish injury rate did not vary with any of the factors tested. Silver carp between 500 and 549 mm had a greater injury rate than other length groups, whereas channel catfish injury rate did not differ among length groups. Injury rate did not vary with condition factor for either channel catfish or silver carp. I found no significant relationship between any reflex action mortality predictor (RAMP) score and internal injuries of channel catfish caused by electrofishing. To test whether pulse frequency affects injury rates of silver carp, I conducted PDC electrofishing in a side channel of the Illinois River at two pulse frequency setting. Pulse frequency appears to have a substantial effect on injury rate, as reducing pulse frequency to 30Hz reduced injury rate of silver carp to 33.3% and increasing pulse frequency to 120Hz increased injury rate of silver carp to 70%. My research has shown that silver carp and channel catfish in the UMRS are being injured from PDC electrofishing. Injury rate for silver carp varied with size class, conductivity, and power output, but further research needs to be done to establish cause and effect among these highly correlated variables. My results suggest it may be possible to adjust pulse frequency and other electrofishing settings to increase rates of injury and mortality for Asian carp. Managers may want to further explore the potential of using electric fields as a management tool both for impeding the movements of Asian carp and potentially reducing their populations

The Long-term Illinois, Mississippi, Ohio, And Wabash Rivers Fish Population Monitoring Program 2013

This report presents a summary of those data collected during segment 25(2013-14) of the Long-term Illinois, Mississippi, Ohio, and Wabash Rivers Fish Population Monitoring Program(LTEF), an annual survey executed by members of the Illinois Natural History Survey with funds administered by the U.S. Fish and Wildlife Service and the Illinois Department of Natural Resources. Sampling for the LTEF program was conducted throughout the state’s largest rivers: six reaches of the Illinois River Waterway, six segments or pools of the Mississippi River, four segmentsor pools of the Ohio River,five segments of the Wabash River, and navigable portions of the Iroquois and Kankakee Rives. In all segments of the LTEF program, all fish species collected were accurately identified, tallied, measured, and weighed. The catchrates of sportfishspecies were calculated as the number of individuals collected per hour (CPUEN± standard error).Structural indices [Proportional Size Distribution (PSD) and Relative Weight (Wr)] were also calculated for species of interest to regional managers. Catch rates and species richness varied greatly among all sampling locationsand sampling periods. Emerald shiners and gizzard shad comprised the majority of the individuals caught, while silver carp and common carp accounted for the greatest proportion of the biomass collected in most sampling areas of the survey. The analysis of CPUEN and PSD trends in sportfish populations sampled by the program may indicate inter-annual recruitment patterns in sportfish populations around the state. Both shovelnose sturgeon and blue catfish were the two species most commonly encountered in the gill net surveys.Illinois Department of Natural Resources, Division of Fisheriesunpublishednot peer reviewe