Multiomic Metabolic Enrichment Network Analysis Reveals Metabolite–Protein Physical Interaction Subnetworks Altered in Cancer

Metabolism is recognized as an important driver of cancer progression and other complex diseases, but global metabolite profiling remains a challenge. Protein expression profiling is often a poor proxy since existing pathway enrichment models provide an incomplete mapping between the proteome and metabolism. To overcome these gaps, we introduce multiomic metabolic enrichment network analysis (MOMENTA), an integrative multiomic data analysis framework for more accurately deducing metabolic pathway changes from proteomics data alone in a gene set analysis context by leveraging protein interaction networks to extend annotated metabolic models. We apply MOMENTA to proteomic data from diverse cancer cell lines and human tumors to demonstrate its utility at revealing variation in metabolic pathway activity across cancer types, which we verify using independent metabolomics measurements. The novel metabolic networks we uncover in breast cancer and other tumors are linked to clinical outcomes, underscoring the pathophysiological relevance of the findings.     

Reply to the first systematic response by the Global Footprint Network to criticism: A real debate finally?

We respond to a reaction of the Global Footprint Network/GFN on our 8-point criticism of the ecological footprint. We also refer to, and comment on, an associated debate in this journal between Giampietro and Saltelli, 2014a, Giampietro and Saltelli, 2014b, on the one hand, and Goldfinger et al. (2014), on the other. We conclude that criticism on the footprint is accumulating and coherent across the various studies and disciplines and among the different authors. This was the first time that Wackernagel/GFN systematically responded to our criticisms. Hence, our response contains several original elements and the resulting exchange can be seen to add value to the existing literature. It ultimately allows readers to better make up their mind about the different viewpoints on the ecological footprint.     

迎接廿一世纪——记中国无锡第十一届国际植物园协会大会

第十一届国际植物园协会（IABG）大会于1993年9月7日在中国无锡开幕,经苏州、杭州,于9月12日在上海闭幕。9月6日部分与会代表参加了在南京举行的“中国南京国际植物园俱乐部”奠基仪式及江苏省重点实验室南京中山植物园“植物迁地保存实验室”扩建部分开放使用等一系列庆祝活动。参加大会的有来自23个国家和地区的199名代表。大会收到论文74篇,其中板报42篇,大会报告13篇。本次会议的主要议题为“植物园与国家发展”。经过大会报告和交流,明确了世界植物园在继续发挥其保护物种和保护环境的功能之外,必须进一步密切植物园与国家发展的关系。全面发展植物园的十项功能,不仅可以增加植物园对社会的贡献,也有利于提高植物园自身的活力和生存能力。大会选出了以主席岩（木规）邦男,副主席李蔼娃、贺善安、安德列也夫,秘书长艾斯特万为领导核心的新一届理事会。世界植物园两大组织国际植物园协会（IABG）和国际植物园保护组织（BGCI）在无锡签署的合作备忘录标志着国际植物园运动进入了一个新的历史时期。理事会的第一次会议于9月11日在由杭州开往上海的火车上举行。讨论了整顿组织、会员登记、出版IABG通讯及与BGCI合作开展活动等问题。会议确认1994年将在印尼召开IABG-AD第二次会议。第十二届IABG大会将于1     

Comparison of European and US biological indicators for ethylene oxide sterilization

Summary Biological indicators (BIs) are used to monitor ethylene oxide (EO) gas sterilization processes for medical devices. Several European and United States BIs for EO sterilization were evaluated for resistance according to both United States Pharmacopeia (USP) XXI and United Kingdom's (UK) tests for D-values. US BIs areB. subtilis var. niger spores on paper strips or disc carriers while European BIs use aluminum strips, quartz sand, or cotton yarn. Numerous BIs per run and runs per lot, as well as 2–3 different lots of BIs from each manufacturer, were examined. Both British and US BIs met their respective label claims for rates of inactivation when tested against British and USP EO test parameters, respectively. However, Danish BIs, on cotton yarn or quartz sand, were not inactivated following USP specifications during the exposure dwell times tested (600 mg L^–1 EO, 54°C, 60% RH, 0–110 min). The Danish BIs will require further testing in order for us to determine if theirB. subtilis spores are unusually resistant to EO or if the spore carrier substrates protect the spores from the sterilizing gas. In conclusion, the British and American BIs for EO sterilization are equivalent in resistance despite differences in carrier substrate, recovery conditions, calculation methods for D-values, and the labeled sterilization conditions for use.     

Evaluation of the role ofMicrovelia douglasi atrolineata (Bergroth) (Heteroptera: Veliidae) as predator of the brown planthopperNilaparvata lugens (Stål) (Homoptera: Delphacidae)

The biology of the veliid bug M. d. atrolineata, its predatory behavior, and the effects of plural hunting were studied to evaluate its role as a predator of the brown planthopper Nilaparvata lugens in the Philippines. The probability of planthoppers falling onto the water surface and provision of habitat continuity was measured by a sticky trap placed at the base of rice hills in a greenhouse and in paddy fields. The developmental period of immature stages combined was 21 days. If given prey, females laid 25 eggs on the average during an adult life span of 18 days. Starved adults could survive for only 3–5 days. The functional response to prey density was sigmoid, and the maximum number of prey killed was 7 per day. Prey feeding was completed in 12–36 min. The percentage of successful prey attacks averaged 5–8%, decreasing with higher (and larger) developmental. stages of prey, but adult prey were found the soonest. Plural hunting increased the probability of capturing prey by as much as 2.5 times that by individual hunting. Late-instar nymphs, which may be more active, fell from rice hills in a greenhouse more than early-instar nymphs, and the number falling increased with density. In the field the percentage of planthoppers falling to the water in 1 day varied considerably, from 1% for nymphs in one field to 67% for adults in another field. On the basis of work described above and given the high density of veliid predators in flooded paddy fields of tropical Asia, M. d. atrolineata is considered one of the most important natural enemies of the brown planthopper.     

Genetic Evaluation and Utilization (GEU) program

Summary The Genetic Evaluation and Utilization (GEU) program of the International Rice Research Institute (IRRI) is an interdisciplinary program for the improvement of rice crops. Scientists trained in diverse disciplines such as plant breeding, plant pathology, entomology, agronomy, cereal chemistry, plant physiology, and soil chemistry work together and contribute their specialized skills to this joint endeavor. The program has five interrelated components: (1) germ plasm collection and conservation, (2) research in disciplinary areas, (3) development of improved germ plasm, (4) distribution, evaluation and exchange of germ plasm internationally, (5) training of young scientists.Over forty thousand rice varieties from different countries are being maintained in the IRRI germ plasm bank. These varieties have been screened for grain quality, resistance to various diseases and insects, and tolerance to various environmental stresses such as drought, high and low temperatures and problem soils. Donor parents for resistances to each of the problem areas have been identified. These parents were utilized for developing improved germ plasm. Varieties with resistance to as many as five diseases and five insect species have been developed. These multiple resistant varieties are grown on millions of hectares of rice land. Seeds of improved breeding materials are exchanged internationally and 194 scientists from different countries have been trained in rice improvement work.     

Journal of Genetics and Genomics

正Aims and Scope Journal of Genetics and Genomics(JGG)is an international journal publishing peer-reviewed articles of novel and significant discoveries in the fields of genetics and genomics.Topics of particular interest include but are not limited to:molecular genetics,developmental genetics,cytogenetics,epigenetics,medical genetics,population and evolutionary genetics,genomics and functional genomics as well as bioinformatics and computational biology.The main article types     

Journal of Genetics and Genomics

正Aims and Scope Journal of Genetics and Genomics(JGG)is an international journal publishing peer-reviewed articles of novel and significant discoveries in the fields of genetics and genomics.Topics of particular interest include but are not limited to:molecular genetics,developmental genetics,cytogenetics,epigenetics,medical genetics,population and evolutionary genetics,genomics and functional genomics as well     

Penicillium roqueforti: an overview of its genetics,physiology, metabolism and biotechnological applications

Besides research on the model fungal genera Saccharomyces, Neurospora and Aspergillus, that has provided important biological knowledge in the areas of genetics, cell biology and physiology, recent investigations on non-model fungi used for food production offer insight into the mechanisms involved in food production but also adaptation and domestication processes. In this context, Penicillium roqueforti has been the most extensively studied species. This species is best known worldwide for its technological use for blue-veined cheese production and ripening. Recently, several advances related to taxonomy, population genetics, physiology and metabolism have been documented and provided deeper knowledge about this species. The methodological approaches used to study this species can be applied to other still largely understudied fungi associated with food production worldwide (e.g. P. camemberti, P. nalgiovense, P. salamii, Bisifusarium domesticum, Mucor spp.).     

苦苣苔科植物学名种加词的问题

苦苣苔科植物是个研究活跃的类群,近年来随着新类群的报道和分类系统的变动,在该科的分类学研究中,出现了不少学名的种加词的性和属名不一致或出现拼写错误的情况,虽然这些错误不影响该名称的合格发表,但还是有必要根据《国际藻类、菌物和植物命名法规》进行改正。该文就苦苣苔科植物中属名以-stigma结尾的学名、属名以-cheilos结尾的学名、根据属名词尾不容易判断出性别的学名、拼写错误的名称等问题进行了分析,并对13个不符合法规的名称予以改正。此外,还就苦苣苔科植物学名的合格发表和规范使用进行了讨论。