bluuebunny/crossref_metadata_2025_split huggingface dataset:
Wounding of Arabidopsis leaves induces indole‐3‐carbinol‐dependent autophagy in roots of Arabidopsis thaliana
Authors: Katz Ella , Chamovitz Daniel A. 
Published: June 2017

SummaryIn cruciferous plants insect attack or physical damage induce the synthesis of the glucosinolate breakdown product indole‐3‐carbinol, which plays a key role in the defense against attackers. Indole‐3‐carbinol also affects plant growth and development, acting as an auxin antagonist by binding to the TIR1 auxin receptor. Other potential functions of indole‐3‐carbinol and the underlying mechanisms in plant biology are unknown. Here we show that an indole‐3‐carbinol‐dependent signal induces specific autophagy in root cells. Leaf treatment with exogenous indole‐3‐carbinol or leaf‐wounding induced autophagy and inhibited auxin response in the root. This induction is lost in glucosinolate‐defective mutants, indicating that the effect of indole‐3‐carbinol is transported in the plants. Thus, indole‐3‐carbinol is not only a defensive metabolite that repels insects, but is also involved in long‐distance communication regulating growth and development in plants.
Draft Genome Sequence of Aeromonas hydrophila Strain BSK-10 (Serotype O97), Isolated from
Carassius carassius
with Motile Aeromonad Septicemia in China
Authors: Pan Xiaoyi , Lin Lingyun , Xu Yang , Yuan Xuemei , Yao Jiayun , Yin Wenlin , Hao Guijie , Shen Jinyu 
Published: June 2017

ABSTRACT

We report here a draft genome sequence of
Aeromonas hydrophila
strain BSK-10, belonging to serotype O97, isolated from crucian carp (
Carassius carassius
) with motile aeromonad septicemia in Zhejiang, China. The assembly resulted in 34 scaffolds totaling approximately 4.97 Mb, with an average G+C content of 60.97% and 4,594 predicted coding genes.
Draft Genome Sequence of Campylobacter jejuni CAM970 and C. coli CAM962, Associated with a Large Outbreak of Foodborne Illness in Fukuoka, Japan, in 2016
Authors: Asakura Hiroshi , Takahashi Naoto , Yamamoto Shiori , Maruyama Hiroyuki 
Published: June 2017

ABSTRACT

Here, we report the draft genome sequences of
Campylobacter jejuni
CAM970 and
C. coli
CAM962, which were associated with a large outbreak of foodborne illness originating from undercooked chicken sushi in Fukuoka, Japan, in May 2016. Their genome sizes were 1,690,901 and 1,704,736 bp, with 22 and 23 rRNAs, 9 and 9 tRNAs, and 411× and 419× coverage for
C. jejuni
CAM970 and
C. coli
CAM962, respectively.
The Genome Sequence of Weissella cibaria DmW_103, Isolated from Wild
Drosophila
Authors: Ricks Nathan J. , Carroll Courtney , Walters Amber , Newell Peter D. , Chaston John M. 
Published: June 2017

ABSTRACT

Lactic acid bacteria are commonly associated with
Drosophila
spp. Here, we report on the isolation of a strain of
Weissella cibaria
and the sequencing, assembly, and annotation of its genome. A total of 35 contigs were generated, with 2,349 coding sequences found.
Complete Genome Sequences of the
p1
Gene Type 2b and 2c Strains Mycoplasma pneumoniae KCH-402 and KCH-405
Authors: Kenri Tsuyoshi , Suzuki Masato , Horino Atsuko , Sekizuka Tsuyoshi , Kuroda Makoto , Fujii Hiroyuki , Hashimoto Toru , Nakajima Hiroshi , Ohya Hitomi , Shibayama Keigo 
Published: June 2017

ABSTRACT

Here, we present the complete genome sequences of
Mycoplasma pneumoniae
KCH-402 and KCH-405, which are
p1
gene type 2b and 2c strains, respectively. These strains harbor variations in the
orf6
gene, which encodes the cytadherence-related proteins P40 and P90.
Draft Genome Sequences of Extended-Spectrum-Beta-Lactamase-Producing Morganella morganii Strains AA1 and AV1, Isolated from a Freshwater Lake and
Eicchornia
crassipes
Roots
Authors: Lata Pushpa , Govindarajan Subramaniam S. , Qi Feng , Li Jian-Liang , Maurya Santosh K. , Sahoo Malaya K. 
Published: June 2017

ABSTRACT

Two strains of
Morganella morganii
, AA1 and AV1, were isolated from freshwater and
Eicchornia crassipes
roots, respectively. Here, we report their draft genome sequences, which are ~3.6 Mb and have 51% G+C content. The predicted coding sequences (3,259 for strain AA1 and 3,345 for strain AV1) encode beta-lactamases, transpeptidases, and penicillin-binding proteins.
Complete Genome Sequence of the Photoautotrophic and Bacteriochlorophyll
e
-Synthesizing Green Sulfur Bacterium Chlorobaculum limnaeum DSM 1677
T
Authors: Tank Marcus , Liu Zhenfeng , Frigaard Niels-Ulrik , Tomsho Lynn P. , Schuster Stephan C. , Bryant Donald A. 
Published: June 2017

ABSTRACT

Chlorobaculum limnaeum
DSM 1677
T
is a mesophilic, brown-colored, chlorophototrophic green sulfur bacterium that produces bacteriochlorophyll
e
and the carotenoid isorenieratene as major pigments. This bacterium serves as a model organism in molecular research on photosynthesis, sulfur metabolism, and bacteriochlorophyll biosynthesis. We report here the complete genome sequence.
Permanent Draft Genome Sequence for
Frankia
sp. Strain Cc1.17, a Nitrogen-Fixing Actinobacterium Isolated from Root Nodules of
Colletia cruciata
Authors: Swanson Erik , Oshone Rediet , Nouioui Imen , Abebe-Akele Feseha , Simpson Stephen , Morris Krystalynne , Thomas W. Kelley , Sen Arnab , Ghodhbane-Gtari Faten , Gtari Maher , Tisa Louis S. 
Published: June 2017

ABSTRACT

Frankia
sp. strain Cc1.17 is a member of the
Frankia
lineage 3, the organisms of which are able to reinfect plants of the Eleagnaceae, Rhamnaceae, and Myricaceae families and the genera
Gynmnostoma
and
Alnus
. Here, we report the 8.4-Mbp draft genome sequence, with a G+C content of 72.14% and 6,721 candidate protein-coding genes.
Draft Genome Sequence of
Pseudoruegeria
sp. SK021, a Representative of the Marine
Roseobacter
Group, Isolated from North Sea Sediment
Authors: Pohlner Marion , Marshall Ian , Schreiber Lars , Cypionka Heribert , Engelen Bert 
Published: June 2017

ABSTRACT

Pseudoruegeria
sp. SK021 is a member of the
Roseobacter
group, isolated under aerobic conditions from North Sea sediment. The draft genome comprises 3.95 Mb and contains 3,747 protein-coding sequences. Although the strain is nonmotile under laboratory conditions, the entire set of genes for the formation of a flagellar apparatus was found.
Diagnostic performance of an automatic blood pressure measurement device, Microlife WatchBP Home A, for atrial fibrillation screening in a real-world primary care setting
Authors: Chan Pak-Hei , Wong Chun-Ka , Pun Louise , Wong Yu-Fai , Wong Michelle Man-Ying , Chu Daniel Wai-Sing , Siu Chung-Wah 
Published: June 2017

ObjectiveTo evaluate the diagnostic performance of a UK National Institute for Health and Care Excellence-recommended automatic oscillometric blood pressure (BP) measurement device incorporated with an atrial fibrillation (AF) detection algorithm (Microlife WatchBP Home A) for real-world AF screening in a primary healthcare setting.SettingPrimary healthcare setting in Hong Kong.InterventionsThis was a prospective AF screening study carried out between 1 September 2014 and 14 January 2015. The Microlife device was evaluated for AF detection and compared with a reference standard of lead-I ECG.Primary outcome measuresDiagnostic performance of Microlife for AF detection.Results5969 patients (mean age: 67.2±11.0 years; 53.9% female) were recruited. The mean CHA2DS2-VASc (C: congestive heart failure [1 point];H: hypertension [1 point];A2: age 65-74 years [1 point] and age ≥75 years [2 points];D: diabetes mellitus [1 point];S: prior stroke or transient ischemic attack [2 points];VA: vascular disease [1 point]; andSc: sex category [female] [1 point])score was 2.8±1.3. AF was diagnosed in 72 patients (1.21%) and confirmed by a 12-lead ECG. The Microlife device correctly identified AF in 58 patients and produced 79 false-positives. The corresponding sensitivity and specificity for AF detection were 80.6% (95% CI 69.5 to 88.9) and 98.7% (95% CI 98.3 to 98.9), respectively. Among patients with a false-positive by the Microlife device, 30.4% had sinus rhythm, 35.4% had sinus arrhythmia and 29.1% exhibited premature atrial complexes. With the low prevalence of AF in this population, the positive and negative predictive values of Microlife device for AF detection were 42.4% (95% CI 34.0 to 51.2) and 99.8% (95% CI 99.6 to 99.9), respectively. The overall diagnostic performance of Microlife device to detect AF as determined by area under the curves was 0.90 (95% CI 0.89 to 0.90).ConclusionsIn the primary care setting, Microlife WatchBP Home was an effective means to screen for AF, with a reasonable sensitivity of 80.6% and a high negative predictive value of 99.8%, in addition to its routine function of BP measurement. In a younger patient population aged <65 years with a lower prevalence of AF, Microlife WatchBP Home A demonstrated a similar diagnostic accuracy.
Rabbits: unilateral perineal‐urinary bladder hernia in a high‐grade cachectic intact female domestic rabbit (Oryctolagus cuniculus)
Authors: Berk Benjamin Andreas , Böttcher Anja , Nagel Sandra , Günter Katerina Pia 
Published: June 2017

A six‐year‐old intactfemale domestic dwarf rabbit (Oryctolagus cuniculus) was presented with an onset of persistent lethargy, inappetence, decreased urination and subcutaneous, fluctuating swelling at the left side of the anal orifice. Physical examination confirmed high‐grade cachexia, general muscular atrophy and perineal repositionable swelling. Reposition was associated with spontaneous urination. Rectal examination revealed dilated pelvic muscles. Radiographs demonstrated an approximately 4×5×3 cm structure of soft tissue opacity with radiopaque content. Needle aspiration exposed cream‐coloured fluid identified as urine by cytology and refractometer. In summary, all clinical findings supported the diagnosis of a bladder herniation through the pelvic muscle into the perineal region. The proposed pathogenesis might be persistent inappetence that resulted in high‐grade cachexia and generalised muscle atrophy, followed by prolapse of the bladder. This is the second published report describing unilateral perineal herniation and incarceration of the bladder in an intactfemale rabbit.
Heme-oxygenase-1 Production by Intestinal CX3CR1+ Macrophages Helps to Resolve Inflammation and Prevents Carcinogenesis
Authors: Marelli Giulia , Erreni Marco , Anselmo Achille , Taverniti Valentina , Guglielmetti Simone , Mantovani Alberto , Allavena Paola 
Published: June 2017

Abstract
CX3CR1+ macrophages in the intestinal lamina propria contribute to gut homeostasis through the immunomodulatory interleukin IL10, but there is little knowledge on how these cells or the CX3CR1 receptor may affect colorectal carcinogenesis. In this study, we show that CX3CR1-deficient mice fail to resolve gut inflammation despite high production of IL10 and have increased colitis and adenomatous polyps in chemical and genetic models of colon carcinogenesis. Mechanistically, CX3CL1-mediated engagement of the CX3CR1 receptor induced upregulation of heme-oxygenase-1 (HMOX-1), an antioxidant and anti-inflammatory enzyme. CX3CR1-deficient mice exhibited significantly lower expression of HMOX-1 in their adenomatous colon tissues. Combining LPS and CX3CL1 displayed a strong synergistic effect in vitro, but HMOX-1 levels were significantly lower in KO macrophages. Cohousing of wild-type and CX3CR1−/− mice during the AOM/DSS treatment attenuated disease severity in CX3CR1−/− mice, indicating the importance of the microbiome, but did not fully reinstate HMOX-1 levels and did not abolish polyp formation. In contrast, pharmacologic induction of HMOX-1 in vivo by cobalt protoporphyrin-IX treatment eradicated intestinal inflammation and fully protected KO mice from carcinogenesis. Taken together, our results establish an essential role for the receptor CX3CR1 in gut macrophages in resolving inflammation in the intestine, where it helps protects against colitis-associated cancer by regulating HMOX-1 expression. Cancer Res; 77(16); 4472–85. ©2017 AACR.
Cotargeting of MEK and PDGFR/STAT3 Pathways to Treat Pancreatic Ductal Adenocarcinoma
Authors: Sahu Nisebita , Chan Emily , Chu Felix , Pham Thinh , Koeppen Hartmut , Forrest William , Merchant Mark , Settleman Jeff 
Published: June 2017

Abstract
Pancreatic ductal adenocarcinoma (PDAC) is among the most lethal human diseases and remains largely refractory to available drug treatments. Insufficient targeting of the known oncogenic drivers and activation of compensatory feedback loops and inability to prevent metastatic spread contribute to poor prognosis for this disease. The KRAS-driven MEK pathway is mutationally activated in most pancreatic cancers and is an important target for therapeutics. Using a two-dimensional monolayer culture system as well as three-dimensional spheroid culture system, we conducted a screen of a large panel of anticancer agents and found that MAP2K (MEK) inhibitors were most effective in targeting PDAC spheroids in comparison with monolayer cultures. Combination treatment with an MEK inhibitor and the multikinase inhibitor ponatinib was effective in targeting pancreatic cancer cells both in monolayer and spheroids by effectively blocking signaling via the PDGFRα and MEK kinases, while also preventing the activation of STAT3- and S6-mediated compensatory feedback loops in cancer cells. Furthermore, using xenograft models, we demonstrate that cotreatment with a MEK inhibitor and ponatinib causes significant tumor regression. PDAC patient samples also provided evidence of increased STAT3 activation in PDAC tumors and MAPK1 (ERK) activation in liver metastases, implicating STAT3 and ERK as key drivers in primary tumors and metastases, respectively. These results reveal a combination drug treatment strategy that may be effective in pancreatic cancer. Mol Cancer Ther; 16(9); 1729–38. ©2017 AACR.
Modeling Therapy Resistance in BRCA1/2-Mutant Cancers
Authors: Dréan Amy , Williamson Chris T. , Brough Rachel , Brandsma Inger , Menon Malini , Konde Asha , Garcia-Murillas Isaac , Pemberton Helen N. , Frankum Jessica , Rafiq Rumana , Badham Nicholas , Campbell James , Gulati Aditi , Turner Nicholas C. , Pettitt Stephen J. , Ashworth Alan , Lord Christopher J. 
Published: June 2017

Abstract
Although PARP inhibitors target BRCA1- or BRCA2-mutant tumor cells, drug resistance is a problem. PARP inhibitor resistance is sometimes associated with the presence of secondary or “revertant” mutations in BRCA1 or BRCA2. Whether secondary mutant tumor cells are selected for in a Darwinian fashion by treatment is unclear. Furthermore, how PARP inhibitor resistance might be therapeutically targeted is also poorly understood. Using CRISPR mutagenesis, we generated isogenic tumor cell models with secondary BRCA1 or BRCA2 mutations. Using these in heterogeneous in vitro culture or in vivo xenograft experiments in which the clonal composition of tumor cell populations in response to therapy was monitored, we established that PARP inhibitor or platinum salt exposure selects for secondary mutant clones in a Darwinian fashion, with the periodicity of PARP inhibitor administration and the pretreatment frequency of secondary mutant tumor cells influencing the eventual clonal composition of the tumor cell population. In xenograft studies, the presence of secondary mutant cells in tumors impaired the therapeutic effect of a clinical PARP inhibitor. However, we found that both PARP inhibitor–sensitive and PARP inhibitor–resistant BRCA2 mutant tumor cells were sensitive to AZD-1775, a WEE1 kinase inhibitor. In mice carrying heterogeneous tumors, AZD-1775 delivered a greater therapeutic benefit than olaparib treatment. This suggests that despite the restoration of some BRCA1 or BRCA2 gene function in “revertant” tumor cells, vulnerabilities still exist that could be therapeutically exploited. Mol Cancer Ther; 16(9); 2022–34. ©2017 AACR.
Farnesoid X Receptor and Liver X Receptor Ligands Initiate Formation of Coated Platelets
Authors: Unsworth Amanda J. , Bye Alexander P. , Tannetta Dionne S. , Desborough Michael J.R. , Kriek Neline , Sage Tanya , Allan Harriet E. , Crescente Marilena , Yaqoob Parveen , Warner Timothy D. , Jones Chris I. , Gibbins Jonathan M. 
Published: June 2017

Objectives—
The liver X receptors (LXRs) and farnesoid X receptor (FXR) have been identified in human platelets. Ligands of these receptors have been shown to have nongenomic inhibitory effects on platelet activation by platelet agonists. This, however, seems contradictory with the platelet hyper-reactivity that is associated with several pathological conditions that are associated with increased circulating levels of molecules that are LXR and FXR ligands, such as hyperlipidemia, type 2 diabetes mellitus, and obesity.

Approach and Results—
We, therefore, investigated whether ligands for the LXR and FXR receptors were capable of priming platelets to the activated state without stimulation by platelet agonists. Treatment of platelets with ligands for LXR and FXR converted platelets to the procoagulant state, with increases in phosphatidylserine exposure, platelet swelling, reduced membrane integrity, depolarization of the mitochondrial membrane, and microparticle release observed. Additionally, platelets also displayed features associated with coated platelets such as P-selectin exposure, fibrinogen binding, fibrin generation that is supported by increased serine protease activity, and inhibition of integrin αIIbβ3. LXR and FXR ligand-induced formation of coated platelets was found to be dependent on both reactive oxygen species and intracellular calcium mobilization, and for FXR ligands, this process was found to be dependent on cyclophilin D.

Conclusions—
We conclude that treatment with LXR and FXR ligands initiates coated platelet formation, which is thought to support coagulation but results in desensitization to platelet stimuli through inhibition of αIIbβ3 consistent with their ability to inhibit platelet function and stable thrombus formation in vivo.
Cardiotonic Steroids Stimulate Macrophage Inflammatory Responses Through a Pathway Involving CD36, TLR4, and Na/K-ATPase
Authors: Chen Yiliang , Huang Wenxin , Yang Moua , Xin Gang , Cui Weiguo , Xie Zijian , Silverstein Roy L. 
Published: June 2017

Objective—
Circulating levels of cardiotonic steroids (CTS) are elevated in various chronic inflammatory conditions, but the role of CTS in inflammation remains largely unknown. We have previously shown that the CTS ouabain stimulates proinflammatory responses in murine macrophages. In this study, we aim to explore the mechanism how CTS induce proinflammatory responses in primary murine and human macrophages.

Approach and Results—

Using both murine peritoneal macrophages and human monocyte–derived macrophages, we demonstrated that ouabain activated NF-κB (nuclear factor kappa-light-chain-enhancer of activated B cells), leading to proinflammatory cytokine (eg, MCP-1 [monocyte chemotactic protein 1], TNF-α [tumor necrosis factor-α], IL-1β [interleukin-1β], and IL-6) production. By applying siRNA techniques and murine peritoneal macrophages isolated from genetically modified mice, we showed that macrophages partially deficient in Na/K-ATPase, the receptor for CTS, or fully deficient in the scavenger receptor CD36 or TLR4 (Toll-like receptor) were resistant to ouabain-induced NF-κB activation, suggesting an indispensable role of these 3 receptors in this pathway. Mechanistically, this effect of ouabain was independent of the ion transport function of the Na/K-ATPase. Instead, ouabain stimulated a signaling complex, including Na/K-ATPase, CD36, and TLR4. Subsequently, TLR4 recruited MyD88 adaptor protein for NF-κB activation. Furthermore, intraperitoneal injection of ouabain into mice specifically recruited Ly6C
+
CCR2
+
monocyte subtypes to the peritoneal cavities, indicating that the CTS ouabain triggers inflammation in vivo.

Conclusions—
CTS activate NF-κB leading to proinflammatory cytokine production in primary macrophages through a signaling complex, including CD36, TLR4, and Na/K-ATPase. These findings warrant further studies on endogenous CTS in chronic inflammatory diseases, such as atherosclerosis.
Multiancestry Study of Gene–Lifestyle Interactions for Cardiovascular Traits in 610 475 Individuals From 124 Cohorts
Authors: Rao D. C. , Sung Yun J. , Winkler Thomas W. , Schwander Karen , Borecki Ingrid , Cupples L. Adrienne , Gauderman W. James , Rice Kenneth , Munroe Patricia B. , Psaty Bruce M. 
Published: June 2017

Background—
Several consortia have pursued genome-wide association studies for identifying novel genetic loci for blood pressure, lipids, hypertension, etc. They demonstrated the power of collaborative research through meta-analysis of study-specific results.

Methods and Results—
The Gene-Lifestyle Interactions Working Group was formed to facilitate the first large, concerted, multiancestry study to systematically evaluate gene–lifestyle interactions. In stage 1, genome-wide interaction analysis is performed in 53 cohorts with a total of 149 684 individuals from multiple ancestries. In stage 2 involving an additional 71 cohorts with 460 791 individuals from multiple ancestries, focused analysis is performed for a subset of the most promising variants from stage 1. In all, the study involves up to 610 475 individuals. Current focus is on cardiovascular traits including blood pressure and lipids, and lifestyle factors including smoking, alcohol, education (as a surrogate for socioeconomic status), physical activity, psychosocial variables, and sleep. The total sample sizes vary among projects because of missing data. Large-scale gene–lifestyle or more generally gene–environment interaction (G×E) meta-analysis studies can be cumbersome and challenging. This article describes the design and some of the approaches pursued in the interaction projects.

Conclusions—
The Gene-Lifestyle Interactions Working Group provides an excellent framework for understanding the lifestyle context of genetic effects and to identify novel trait loci through analysis of interactions. An important and novel feature of our study is that the gene–lifestyle interaction (G×E) results may improve our knowledge about the underlying mechanisms for novel and already known trait loci.
A new species and a new combination of Caloboletus from China
Authors: ZHANG MING , LI TAI HUI , GELARDI MATTEO , SONG BIN , ZHONG XIANG JING 
Published: June 2017

A new species, Caloboletus xiangtoushanensis sp. nov., is reported from China. This medium-sized bolete is distinguished by a brownish orange to greyish yellow pileus, greyish yellow to olive yellow hymenophore that quickly stains blue when bruised, reticulate stipe, bitter taste and oblong to subfusoid basidiospores 9–13(–13.5) × 4–5 μm. On the basis of its morphological and molecular characters (ITS, nrLSU, tef1-α and rpb1), this novel taxon can be assigned to the genus Caloboletus, sister to Boletus taienus. Accordingly, a new combination C. taienus comb. nov. is also proposed in this study based on both morphological and phylogenetic evidence.