Biostratigraphy of Middle and Late Pennsylvanian (Desmoinesian-Virgilian) ammonoids

New stratigraphic ranges for genera of Desmoinesian-Virgilian ammonoids are presented, based on analysis of 40,000 specimens collected from over 70 ammonoid-bearing horizons that represent at least 40 successive stratigraphic levels in the North American midcontinent. These range revisions indicate that current generic-level ammonoid zonations are inadequate, especially for correlation of Pennsylvanian series and stage boundaries. Six high-confidence, largely generic-level first-occurrence zones are proposed for the Desmoinesian through Virgilian stages: Wellerites Zone, Eothalassoceras Zone, Pennoceras Zone, Preshumardites Zone, Pseudaktubites Zone, and Shumardites Zone. Fifteen zones of lesser confidence for correlation are also suggested. The Shumarditidae Plummer & Scott, 1937, is emended to include Preshumardites Plummer & Scott, 1937, Pseudaktubites gen. nov. (type species, Preshumardites stainbrooki Plummer & Scott, 1937), and Shumardites Smith, 1903. Early Permian (Sakmarian) species previously assigned to Preshumardites are reassigned to Andrianovia gen. nov. (type species ?Preshumardites sakmarae Ruzhencev, 1938). Aktubites Ruzhencev, 1955, Eoshumardites Popov, 1960, and Parashumardites Ruzhencev, 1939, previously included in the Shumarditidae, are assigned to the new family Parashumarditidae. Eovidrioceras inexpectans gen. nov., sp. nov. is included and is interpreted as the ancestor of the cyclobacean family Vidrioceratidae Plummer & Scott, 1937. The base of the revised Wellerites Zone, defined by the first occurrence of the nominate genus, approximates but does not coincide with the Atokan-Desmoinesian boundary. Recorrelation of the stratigraphic level of the Collinsville, Oklahoma, ammonoid locality from the "Seminole Formation" (basal Missourian) to the Holdenville Formation (upper Desmoinesian), based on lithostratigraphic evidence, effectively places the first occurrence of Eothalassoceras in the upper Desmoinesian. Because Wellerites apparently became extinct before the end of the Desmoinesian, the revised Eothalassoceras Zone is used to represent the upper Desmoinesian. The Middle-Upper Pennsylvanian boundary (Desmoinesian-Missourian boundary) can be recognized by the appearance of Pennoceras, which defines the base of the new Pennoceras Zone. The Pennoceras Zone is an excellent indicator of lower Missourian strata in the northern midcontinent, north-central Texas, the Marathon Uplift, and the Appalachian Basin. The new Preshumardites Zone occupies most of the upper part of the Missourian Stage. The appearance of the ancestral shumarditid Pseudaktubites, which defines the base of the new Pseudaktubites Zone, occurs one cycle below the Missourian-Virgilian boundary, which is currently recognized at the top of the South Bend Limestone Member in eastern Kansas. No recognizable biostratigraphic event coincides with the South Bend Member, thereby resulting in an uncorrelatable chronostratigraphic boundary. The largest changeover in ammonoid faunas takes place at the base of strata containing the upper part of the Pseudaktubites Zone (Pseudaktubites stainbrooki Subzone). The base of the Pseudaktubites stainbrooki Subzone is stratigraphically near the original Missourian-Virgilian boundary. It is recommended that the stratigraphic level containing the base of the Pseudaktubites stainbrooki Subzone be adopted as the official base of the Virgilian Stage. Recognition of the upper subzone of the Pseudaktubites Zone (Pseudaktubites stainbrooki Subzone) within the Colony Creek Shale Member in north-central Texas places the base of the Virgilian within the upper part of the Canyon Group and substantially below the current position at the Canyon-Cisco group boundary. Shumardites, a taxon previously used to mark the base of the Virgilian Stage, appears in early middle Virgilian strata; consequently, the revised Shumardites Zone represents the middle-upper Virgilian interval

Biostratigraphy of Middle and Late Pennsylvanian (Desmoinesian-Virgilian) ammonoids

New stratigraphic ranges for genera of Desmoinesian-Virgilian ammonoids are presented, based on analysis of 40,000 specimens collected from over 70 ammonoid-bearing horizons that represent at least 40 successive stratigraphic levels in the North American midcontinent. These range revisions indicate that current generic-level ammonoid zonations are inadequate, especially for correlation of Pennsylvanian series and stage boundaries. Six high-confidence, largely generic-level first-occurrence zones are proposed for the Desmoinesian through Virgilian stages: Wellerites Zone, Eothalassoceras Zone, Pennoceras Zone, Preshumardites Zone, Pseudaktubites Zone, and Shumardites Zone. Fifteen zones of lesser confidence for correlation are also suggested. The Shumarditidae Plummer & Scott, 1937, is emended to include Preshumardites Plummer & Scott, 1937, Pseudaktubites gen. nov. (type species, Preshumardites stainbrooki Plummer & Scott, 1937), and Shumardites Smith, 1903. Early Permian (Sakmarian) species previously assigned to Preshumardites are reassigned to Andrianovia gen. nov. (type species ?Preshumardites sakmarae Ruzhencev, 1938). Aktubites Ruzhencev, 1955, Eoshumardites Popov, 1960, and Parashumardites Ruzhencev, 1939, previously included in the Shumarditidae, are assigned to the new family Parashumarditidae. Eovidrioceras inexpectans gen. nov., sp. nov. is included and is interpreted as the ancestor of the cyclobacean family Vidrioceratidae Plummer & Scott, 1937. The base of the revised Wellerites Zone, defined by the first occurrence of the nominate genus, approximates but does not coincide with the Atokan-Desmoinesian boundary. Recorrelation of the stratigraphic level of the Collinsville, Oklahoma, ammonoid locality from the "Seminole Formation" (basal Missourian) to the Holdenville Formation (upper Desmoinesian), based on lithostratigraphic evidence, effectively places the first occurrence of Eothalassoceras in the upper Desmoinesian. Because Wellerites apparently became extinct before the end of the Desmoinesian, the revised Eothalassoceras Zone is used to represent the upper Desmoinesian. The Middle-Upper Pennsylvanian boundary (Desmoinesian-Missourian boundary) can be recognized by the appearance of Pennoceras, which defines the base of the new Pennoceras Zone. The Pennoceras Zone is an excellent indicator of lower Missourian strata in the northern midcontinent, north-central Texas, the Marathon Uplift, and the Appalachian Basin. The new Preshumardites Zone occupies most of the upper part of the Missourian Stage. The appearance of the ancestral shumarditid Pseudaktubites, which defines the base of the new Pseudaktubites Zone, occurs one cycle below the Missourian-Virgilian boundary, which is currently recognized at the top of the South Bend Limestone Member in eastern Kansas. No recognizable biostratigraphic event coincides with the South Bend Member, thereby resulting in an uncorrelatable chronostratigraphic boundary. The largest changeover in ammonoid faunas takes place at the base of strata containing the upper part of the Pseudaktubites Zone (Pseudaktubites stainbrooki Subzone). The base of the Pseudaktubites stainbrooki Subzone is stratigraphically near the original Missourian-Virgilian boundary. It is recommended that the stratigraphic level containing the base of the Pseudaktubites stainbrooki Subzone be adopted as the official base of the Virgilian Stage. Recognition of the upper subzone of the Pseudaktubites Zone (Pseudaktubites stainbrooki Subzone) within the Colony Creek Shale Member in north-central Texas places the base of the Virgilian within the upper part of the Canyon Group and substantially below the current position at the Canyon-Cisco group boundary. Shumardites, a taxon previously used to mark the base of the Virgilian Stage, appears in early middle Virgilian strata; consequently, the revised Shumardites Zone represents the middle-upper Virgilian interval

Validation of a Multivariate Serum Profile for Epithelial Ovarian Cancer Using a Prospective Multi-Site Collection

In previous studies we described the use of a retrospective collection of ovarian cancer and benign disease samples, in combination with a large set of multiplexed immunoassays and a multivariate pattern recognition algorithm, to develop an 11-biomarker classification profile that is predictive for the presence of epithelial ovarian cancer. In this study, customized, Luminex-based multiplexed immunoassay kits were GMP-manufactured and the classification profile was refined from 11 to 8 biomarkers (CA-125, epidermal growth factor receptor, CA 19-9, C-reactive protein, tenascin C, apolipoprotein AI, apolipoprotein CIII, and myoglobin). The customized kits and the 8-biomarker profile were then validated in a double-blinded manner using prospective samples collected from women scheduled for surgery, with a gynecologic oncologist, for suspicion of having ovarian cancer. The performance observed in model development held in validation, demonstrating 81.1% sensitivity (95% CI 72.6 – 87.9%) for invasive epithelial ovarian cancer and 85.4% specificity (95% CI 81.1 – 88.9%) for benign ovarian conditions. The specificity for normal healthy women was 95.6% (95% CI 83.6 – 99.2%). These results have encouraged us to undertake a second validation study arm, currently in progress, to examine the performance of the 8-biomarker profile on the population of women not under the surgical care of a gynecologic oncologist

SMA-MAP: A Plasma Protein Panel for Spinal Muscular Atrophy

Objectives: Spinal Muscular Atrophy (SMA) presents challenges in (i) monitoring disease activity and predicting progression, (ii) designing trials that allow rapid assessment of candidate therapies, and (iii) understanding molecular causes and consequences of the disease. Validated biomarkers of SMA motor and non-motor function would offer utility in addressing these challenges. Our objectives were (i) to discover additional markers from the Biomarkers for SMA (BforSMA) study using an immunoassay platform, and (ii) to validate the putative biomarkers in an independent cohort of SMA patients collected from a multi-site natural history study (NHS). Methods: BforSMA study plasma samples (N = 129) were analyzed by immunoassay to identify new analytes correlating to SMA motor function. These immunoassays included the strongest candidate biomarkers identified previously by chromatography. We selected 35 biomarkers to validate in an independent cohort SMA type 1, 2, and 3 samples (N = 158) from an SMA NHS. The putative biomarkers were tested for association to multiple motor scales and to pulmonary function, neurophysiology, strength, and quality of life measures. We implemented a Tobit model to predict SMA motor function scores. Results: 12 of the 35 putative SMA biomarkers were significantly associated (p\u3c0.05) with motor function, with a 13th analyte being nearly significant. Several other analytes associated with non-motor SMA outcome measures. From these 35 biomarkers, 27 analytes were selected for inclusion in a commercial panel (SMA-MAP) for association with motor and other functional measures. Conclusions: Discovery and validation using independent cohorts yielded a set of SMA biomarkers significantly associated with motor function and other measures of SMA disease activity. A commercial SMA-MAP biomarker panel was generated for further testing in other SMA collections and interventional trials. Future work includes evaluating the panel in other neuromuscular diseases, for pharmacodynamic responsiveness to experimental SMA therapies, and for predicting functional changes over time in SMA patients. © 2013 Kobayashi et al

The Vehicle, Fall 2006

Table of Contents Ferris WheelEmily Daviscover HerStephen Jefferiespage 1 UntitledBob Freyderpage 2 Writing at O\u27BrienWillie Joseph Morrispage 3 Blanks and HabitsRebecca M. Griffithpage 4 Soldier\u27s NightmareCraig A. Dennispage 5 UntitledLindsey Durbinpage 6 A Slow, Painless DeathJacob Fosterpage 7 ThoughtAmanda Yealepage 8 The SociopathBob Freyderpage 9 EasyRebecca M. Griffithpage 10 My PartnerDiedre Mapespage 11 BarriersSuzanne Krahnpage 12 The mind is a prisonJordan Hohespage 13 We Were Shirtless When Thousands DiedMitch Jamespage 14 ComplaintAmanda Yealepage 15 UntitledBob Freyderpage 16 MarkedAmanda Yealepage 17 She Wears Red Lipstick, He, Heartsick EyesRebecca M. Griffithpage 18 PrayerAmanda Yealepage 19 HomeDeej Rolewskipage 20 Your DreamDiedre Mapespage 21 Even Fingers Get LonelySuzanne Krahnpage 22 AggressivityMitch Jamespage 23 FallenMitch Jamespage 24 CollapseMario Podeschipage 36 The Italian CrisisAndy Masterspage 41 About the Authorshttps://thekeep.eiu.edu/vehicle/1084/thumbnail.jp

The Vehicle, Fall 2006

Table of Contents Ferris WheelEmily Daviscover HerStephen Jefferiespage 1 UntitledBob Freyderpage 2 Writing at O\u27BrienWillie Joseph Morrispage 3 Blanks and HabitsRebecca M. Griffithpage 4 Soldier\u27s NightmareCraig A. Dennispage 5 UntitledLindsey Durbinpage 6 A Slow, Painless DeathJacob Fosterpage 7 ThoughtAmanda Yealepage 8 The SociopathBob Freyderpage 9 EasyRebecca M. Griffithpage 10 My PartnerDiedre Mapespage 11 BarriersSuzanne Krahnpage 12 The mind is a prisonJordan Hohespage 13 We Were Shirtless When Thousands DiedMitch Jamespage 14 ComplaintAmanda Yealepage 15 UntitledBob Freyderpage 16 MarkedAmanda Yealepage 17 She Wears Red Lipstick, He, Heartsick EyesRebecca M. Griffithpage 18 PrayerAmanda Yealepage 19 HomeDeej Rolewskipage 20 Your DreamDiedre Mapespage 21 Even Fingers Get LonelySuzanne Krahnpage 22 AggressivityMitch Jamespage 23 FallenMitch Jamespage 24 CollapseMario Podeschipage 36 The Italian CrisisAndy Masterspage 41 About the Authorshttps://thekeep.eiu.edu/vehicle/1084/thumbnail.jp

Reconsidering Relationships among Stem and Crown Group Pinaceae: Oldest Record of the Genus Pinus from the Early Cretaceous of Yorkshire, United Kingdom

This study describes a specimen that extends the oldest fossil evidence of Pinus L. to the Early Cretaceous Wealden Formation of Yorkshire, UK (131-129 million years ago), and prompts a critical reevaluation of criteria that are employed to identify crown group genera of Pinaceae from anatomically preserved seed cones. The specimen, described as Pinus yorkshirensis sp. nov., is conical, 5 cm long, and 3.1 cm in maximum diameter. Bract/scale complexes are helically arranged and spreading. Vasculature of the axis forms a complete cylinder with few resin canals in the wood, and the inner cortex is dominated by large resin canals. Bracts are short, with two resin canals, and separate from the scale base laterally. Distally, the ovuliferous scales broaden and thicken to form a rhomboidal apophysis with a dorsal umbo, characters found only in the genus Pinus among living conifers. Resin canals enter the ovuliferous scale abaxial to the vascular tissue, which divides distally to form a row of adaxially convex bundles. A short interseminal ridge separates two inverted and winged seeds on the adaxial surface of the ovuliferous scale. Seeds contain megagametophyte tissue and polycotyledonary embryos. Numerical cladistic analysis of anatomically preserved seed cones yields a well-resolved phylogeny of crown and stem group Pinaceae that is roughly concordant with the results of analyses that include living species only. All of the included species of Pinus form a clade with three very Pinus-like species that currently are assigned to the stem genus Pityostrobus. These results call to question the utility of traditional methods for assigning fossil seed cones to Pinus, resolve relationships among stem and crown group genera, and highlight the unnatural circumscription of Pityostrobus. This suggests that some species of Pityostrobus may actually represent the genus Pinus, and it demonstrates that the evolutionary diversification of Pinaceae began earlier than previously recognized from fossil evidence.This is the publisher’s final pdf. The published article is copyrighted by University of Chicago Press and can be found at: http://www.press.uchicago.edu/index.html.Keywords: Yorkshire, Early Cretaceous, Fossil, Seed cone, Phylogeny of Pinaceae, PinusKeywords: Yorkshire, Early Cretaceous, Fossil, Seed cone, Phylogeny of Pinaceae, Pinu

Validation of a Blood-Based Laboratory Test to Aid in the Confirmation of a Diagnosis of Schizophrenia

We describe the validation of a serum-based test developed by Rules-Based Medicine which can be used to help confirm the diagnosis of schizophrenia. In preliminary studies using multiplex immunoassay profiling technology, we identified a disease signature comprised of 51 analytes which could distinguish schizophrenia (n = 250) from control (n = 230) subjects. In the next stage, these analytes were developed as a refined 51-plex immunoassay panel for validation using a large independent cohort of schizophrenia (n = 577) and control (n = 229) subjects. The resulting test yielded an overall sensitivity of 83% and specificity of 83% with a receiver operating characteristic area under the curve (ROC-AUC) of 89%. These 51 immunoassays and the associated decision rule delivered a sensitive and specific prediction for the presence of schizophrenia in patients compared to matched healthy controls

Comprehensive Serum Profiling for the Discovery of Epithelial Ovarian Cancer Biomarkers

FDA-cleared ovarian cancer biomarkers are limited to CA-125 and HE4 for monitoring and recurrence and OVA1, a multivariate panel consisting of CA-125 and four additional biomarkers, for referring patients to a specialist. Due to relatively poor performance of these tests, more accurate and broadly applicable biomarkers are needed. We evaluated the dysregulation of 259 candidate cancer markers in serum samples from 499 patients. Sera were collected prospectively at 11 monitored sites under a single well-defined protocol. All stages of ovarian cancer and common benign gynecological conditions were represented. To ensure consistency and comparability of biomarker comparisons, all measurements were performed on a single platform, at a single site, using a panel of rigorously calibrated, qualified, high-throughput, multiplexed immunoassays and all analyses were conducted using the same software. Each marker was evaluated independently for its ability to differentiate ovarian cancer from benign conditions. A total of 175 markers were dysregulated in the cancer samples. HE4 (AUC = 0.933) and CA-125 (AUC = 0.907) were the most informative biomarkers, followed by IL-2 receptor α, α1-antitrypsin, C-reactive protein, YKL-40, cellular fibronectin, CA-72-4 and prostasin (AUC>0.800). To improve the discrimination between cancer and benign conditions, a simple multivariate combination of markers was explored using logistic regression. When combined into a single panel, the nine most informative individual biomarkers yielded an AUC value of 0.950, significantly higher than obtained when combining the markers in the OVA1 panel (AUC 0.912). Additionally, at a threshold sensitivity of 90%, the combination of the top 9 markers gave 88.9% specificity compared to 63.4% specificity for the OVA1 markers. Although a blinded validation study has not yet been performed, these results indicate that alternative biomarker combinations might lead to significant improvements in the detection of ovarian cancer