Millimeter wave MIMO communications : high-resolution angle acquisition and low-resolution time-frequency synchronization

Knowledge of the propagation channel is critical to exploit the full benefit of multiple-input multiple-output (MIMO) techniques in millimeter wave (mmWave) cellular systems. Obtaining accurate channel state information in mmWave systems, however, is challenging due to high estimation overhead, high computational complexity and on-grid setting. It is also desirable to reduce the analog-to-digital converters (ADCs) resolution at mmWave frequencies to reduce power consumption and implementation costs. The use of low-precision ADCs, though, brings new design challenges to practical cellular networks. In the first part of this dissertation, we develop several new methods to estimate and track the mmWave channel's angle-of-departure and angle-of-arrival with high accuracy and low overhead. The key ingredient of the proposed strategies is custom designed beam pairs, from which there exists an invertible function of the angle to be estimated. We further extend the proposed algorithms to dual-polarized MIMO in wideband channels, and angle tracking design for fast-varying environments. We derive analytical angle estimation error performance of the proposed methods in single-path channels. We also use numerical examples to characterize the robustness of the proposed approaches to various transceiver settings and channel conditions. In the second part of this dissertation, we focus on improving the low-resolution time-frequency synchronization performance for mmWave cellular systems. In our system model, the base station uses analog beams to send the synchronization signal with infinite-resolution digital-to-analog converters (DACs). The user equipment employs a fully digital front end to detect the synchronization signal with low-resolution ADCs. For low-resolution timing synchronization, we propose a new multi-beam probing based strategy, targeting at maximizing the minimum received synchronization signal-to-quantization-plus-noise ratio among all serving users. Regarding low-resolution frequency synchronization, we construct new sequences for carrier frequency offset (CFO) estimation and compensation. We use both analytical and numerical examples to show that the proposed sequences and the corresponding metrics used for retrieving the CFOs are robust to the quantization distortion.Electrical and Computer Engineerin

Human coronary plaque wall thickness correlated positively with flow shear stress and negatively with plaque wall stress: An IVUS-based fluid-structure interaction multi-patient study

BACKGROUND: Atherosclerotic plaque progression and rupture are believed to be associated with mechanical stress conditions. In this paper, patient-specific in vivo intravascular ultrasound (IVUS) coronary plaque image data were used to construct computational models with fluid-structure interaction (FSI) and cyclic bending to investigate correlations between plaque wall thickness and both flow shear stress and plaque wall stress conditions. METHODS: IVUS data were acquired from 10 patients after voluntary informed consent. The X-ray angiogram was obtained prior to the pullback of the IVUS catheter to determine the location of the coronary artery stenosis, vessel curvature and cardiac motion. Cyclic bending was specified in the model representing the effect by heart contraction. 3D anisotropic FSI models were constructed and solved to obtain flow shear stress (FSS) and plaque wall stress (PWS) values. FSS and PWS values were obtained for statistical analysis. Correlations with p < 0.05 were deemed significant. RESULTS: Nine out of the 10 patients showed positive correlation between wall thickness and flow shear stress. The mean Pearson correlation r-value was 0.278 ± 0.181. Similarly, 9 out of the 10 patients showed negative correlation between wall thickness and plaque wall stress. The mean Pearson correlation r-value was -0.530 ± 0.210. CONCLUSION: Our results showed that plaque vessel wall thickness correlated positively with FSS and negatively with PWS. The patient-specific IVUS-based modeling approach has the potential to be used to investigate and identify possible mechanisms governing plaque progression and rupture and assist in diagnosis and intervention procedures. This represents a new direction of research. Further investigations using more patient follow-up data are warranted

A novel mutation in the UBAP1 gene causing hereditary spastic paraplegia: A case report and overview of the genotype-phenotype correlation

Hereditary Spastic Paraplegia (HSP) is considered to be one of the common neurodegenerative diseases with marked genetic heterogeneity. Recently, the mutations in ubiquitin-associated protein 1 (UBAP1) have been described in patients with HSP, known as spastic paraplegias 80 (SPG80). Here, we reported a Chinese HSP family presenting a frameshift mutation in the UBAP1 gene leading to complex HSP. Their clinical features encompassed spastic paraparetic gait, exaggerated patellar tendon reflexes, bilateral Babinski signs, and hyperactive Achilles tendon reflex. The proband also had severe urinary incontinence and a dermoid cyst at the lumbar 4–5 spinal cord, which rarely occurs in HSP patients. Following whole-exome sequencing, a novel heterozygous mutation (c.437dupG, NM_016,525) was identified in the UBAP1 that segregated with the family’s phenotype and resulted in truncating UBAP1 protein (p.Ser146ArgfsTer13). Moreover, we reviewed the genotypes of UBAP1 and the phenotypic variability in 90 HSP patients reported in the literature. We found that the age of onset in UBAP1-related patients was juvenile, and there were population differences in the age of onset. The main complications were lower extremity spasticity, hyperreflexia, and the Babinski sign. Exon 4 of UBAP1 was identified as a mutation hotspot region. Our study expands the knowledge of UBAP1 mutations, which will aid in HSP patient counseling. Further molecular biological research is needed to explore the genotype-phenotype correlations of UBAP1-related HSP

Nutrient co‐limitation in the subtropical Northwest Pacific

Nutrients limiting phytoplankton growth in the ocean are a critical control on ocean productivity and can underpin predicted responses to climate change. The extensive western subtropical North Pacific is assumed to be under strong nitrogen limitation, but this is not well supported by experimental evidence. Here, we report the results of 14 factorial nitrogen–phosphorus–iron addition experiments through the Philippine Sea, which demonstrate a gradient from nitrogen limitation in the north to nitrogen–iron co-limitation in the south. While nitrogen limited sites responded weakly to nutrient supply, co-limited sites bloomed with up to ~60-fold increases in chlorophyll a biomass that was dominated by initially undetectable diatoms. The transition in limiting nutrients and phytoplankton growth capacity was driven by a gradient in deep water nutrient supply, which was undetectable in surface concentration fields. We hypothesize that this large-scale phytoplankton response gradient is both climate sensitive and potentially important for regulating the distribution of predatory fish

Quantification of patient-specific coronary material properties and their correlations with plaque morphological characteristics: An in vivo IVUS study

BACKGROUND: A method using in vivo Cine IVUS and VH-IVUS data has been proposed to quantify material properties of coronary plaques. However, correlations between plaque morphological characteristics and mechanical properties have not been studied in vivo. METHOD: In vivo Cine IVUS and VH-IVUS data were acquired at 32 plaque cross-sections from 19 patients. Six morphological factors were extracted for each plaque. These samples were categorized into healthy vessel, fibrous plaque, lipid-rich plaque and calcified plaque for comparisons. Three-dimensional thin-slice models were constructed using VH-IVUS data to quantify in vivo plaque material properties following a finite element updating approach by matching Cine IVUS data. Effective Young\u27s moduli were calculated to represent plaque stiffness for easy comparison. Spearman\u27s rank correlation analysis was performed to identify correlations between plaque stiffness and morphological factor. Kruskal-Wallis test with Bonferroni correction was used to determine whether significant differences in plaque stiffness exist among four plaque groups. RESULT: Our results show that lumen circumference change has a significantly negative correlation with plaque stiffness (r = -0.7807, p = 0.0001). Plaque burden and calcification percent also had significant positive correlations with plaque stiffness (r = 0.5105, p \u3c 0.0272 and r = 0.5312, p \u3c 0.0193) respectively. Among the four categorized groups, calcified plaques had highest stiffness while healthy segments had the lowest. CONCLUSION: There is a close link between plaque morphological characteristics and mechanical properties in vivo. Plaque stiffness tends to be higher as coronary atherosclerosis advances, indicating the potential to assess plaque mechanical properties in vivo based on plaque compositions

Ambient nitrate switches the ammonium consumption pathway in the euphotic ocean

高树基教授研究团队的研究论文，以现场原位速率观测与环境因子调查，证明了环境硝酸盐浓度是调控海洋真光层不同氨氮消耗途径的关键因子。硝酸盐通过影响浮游植物对于氨氮吸收的能力，决定了真光层内氨氮的氧化路径强弱，刻画了海洋真光层氮循环的微结构。高树基团队利用同位素示踪培养技术，围绕南海和西北太平洋真光层内硝化作用和浮游植物氨氮吸收速率的垂直分布特点及其动力学特征进行研究。首次提出硝酸盐浓度通过影响不同浮游植物类群对于氨氮的吸收能力，从而调控真光层的氨氮消耗途径。研究团队的万显会博士为成果的第一作者，近海海洋环境科学国家重点实验室的戴民汉教授，史大林教授、张瑶教授、盛华夏博士后、祝依凡，以及澳大利亚联邦科学与工业研究组的Tom Trull教授和美国Bigelow海洋实验室的Mike Lomas教授为成果的共同完成人。【Abstract】Phytoplankton assimilation and microbial oxidation of ammonium are two critical conversion pathways in the marine nitrogen cycle. The underlying regulatory mechanisms of these two competing processes remain unclear. Here we show that ambient nitrate acts as a key variable to bifurcate ammonium flow through assimilation or oxidation, and the depth of the nitracline represents a robust spatial boundary between ammonium assimilators and oxidizers in the stratified ocean. Profiles of ammonium utilization show that phytoplankton assemblages in nitrate-depleted regimes have higher ammonium affinity than nitrifiers. In nitrate replete conditions, by contrast, phytoplankton reduce their ammonium reliance and thus enhance the success of nitrifiers. This finding helps to explain existing discrepancies in the understanding of light inhibition of surface nitrification in the global ocean, and provides further insights into the spatial linkages between oceanic nitrification and new production.This work is supported by the National Natural Science Foundation of China through grants 91328207, Science Fund for Creative Research Groups of the National Natural Science Foundation of China through grants 41721005 and National Basic Research Program of China (973 Program) through grants 2014CB953702, 2015CB954003. T.W.T. was supported by an MEL Visiting Scholar award. 成果获得了国家重点基础研究发展计划（2014CB953702, 2015CB954003），国家自然科学基金委“创新研究群体项目”（41721005）以及重点基金（91328207）的资助

Expression of two barley proteinase inhibitors in tomato promotes endogenous defensive response and enhances resistance to Tuta absoluta

[EN] Background: For as long as 350 million years, plants and insects have coexisted and developed a set of relationships which affect both organisms at different levels. Plants have evolved various morphological and biochemical adaptations to cope with herbivores attacks. However, Tuta absoluta (Meyrick) (Lepidoptera: Gelechiidae) has become the major pest threatening tomato crops worldwide and without the appropriated management it can cause production losses between 80 to 100%. Results: The aim of this study was to investigate the in vivo effect of a serine proteinase inhibitor (BTI-CMe) and a cysteine proteinase inhibitor (Hv-CPI2) from barley on this insect and to examine the effect their expression has on tomato defensive response. We found that larvae fed on the double transgenic plants showed a notable reduction in weight. Moreover, only 56% of the larvae reached the adult stage. The emerged adults showed wings deformities and reduced fertility. We also investigated the effect of proteinase inhibitors ingestion on the insect digestive enzymes. Our results showed a decrease in larval trypsin activity. Transgenes expression had no harmful effect on Nesidiocoris tenuis (Reuter) (Heteroptera: Miridae), a predator of Tuta absoluta, despite transgenic tomato plants attracted the mirid. We also found that barley cystatin expression promoted plant defense by inducing the expression of the tomato endogenous wound inducible Proteinase inhibitor 2 (Pin2) gene, increasing the production of glandular trichomes and altering the emission of volatile organic compounds. Conclusion: Our results demonstrate the usefulness of the co-expression of different proteinase inhibitors for the enhancement of plant resistance to Tuta absoluta.This work was partly supported by grants BIO2013-40747-R and AGL2014-55616-C3 from the Spanish Ministry of Economy and Competitiveness (MINECO)Hamza, R.; Pérez-Hedo, M.; Urbaneja, A.; Rambla Nebot, JL.; Granell Richart, A.; Gaddour, K.; Beltran Porter, JP.... (2018). Expression of two barley proteinase inhibitors in tomato promotes endogenous defensive response and enhances resistance to Tuta absoluta. BMC Plant Biology. 18. https://doi.org/10.1186/s12870-018-1240-6S18Oerke EC. Crop losses to pests. J Agric Sci. 2005;144(01):31.Jouanin L, Bonadé-Bottino M, Girard C, Morrot G, Giband M. Transgenic plants for insect resistance. Plant Sci. 1998;131(1):1–11.Markwick NP, Docherty LC, Phung MM, Lester MT, Murray C, Yao JL, Mitra DS, Cohen D, Beuning LL, Kutty-Amma S, et al. Transgenic tobacco and apple plants expressing biotin-binding proteins are resistant to two cosmopolitan insect pests, potato tuber moth and lightbrown apple moth, respectively. Transgenic Res. 2003;12(6):671–81.Koiwa H, Bressan RA, Hasegawa PM. Regulation of protease inhibitors and plant defense. Trends Plant Sci. 1997;2(10):379–84.Ryan CA. Protease inhibitors in plants: genes for improving defenses against insects and pathogens. Annu Rev Phytopathol. 1990;28(1):425–49.Abdeen A, Virgos A, Olivella E, Villanueva J, Aviles X, Gabarra R, Prat S. Multiple insect resistance in transgenic tomato plants over-expressing two families of plant proteinase inhibitors. Plant Mol Biol. 2005;57(2):189–202.Quilis J, López-García B, Meynard D, Guiderdoni E, San Segundo B. Inducible expression of a fusion gene encoding two proteinase inhibitors leads to insect and pathogen resistance in transgenic rice. Plant Biotechnol J. 2014;12(3):367–77.Smigocki AC, Ivic-Haymes S, Li H, Savic J. Pest protection conferred by a Beta vulgaris serine proteinase inhibitor gene. PLoS One. 2013;8(2):e57303.Mazumdar-Leighton S, Broadway RM. Transcriptional induction of diverse midgut trypsins in larval Agrotis ipsilon and Helicoverpa zea feeding on the soybean trypsin inhibitor. Insect Biochem Mol Biol. 2001;31(6–7):645–57.Oppert B, Morgan TD, Hartzer K, Kramer KJ. Compensatory proteolytic responses to dietary proteinase inhibitors in the red flour beetle, Tribolium castaneum (Coleoptera: Tenebrionidae). Comparative Biochemistry and Physiology Part C: Toxicology & Pharmacology. 2005;140(1):53–8.Broadway RM. Dietary regulation of serine proteinases that are resistant to serine proteinase inhibitors. J Insect Physiol. 1997;43(9):855–74.Zhu-Salzman K, Koiwa H, Salzman R, Shade R, Ahn JE. Cowpea bruchid Callosobruchus maculatus uses a three-component strategy to overcome a plant defensive cysteine protease inhibitor. Insect Mol Biol. 2003;12(2):135–45.Oppert B, Morgan TD, Hartzer K, Lenarcic B, Galesa K, Brzin J, Turk V, Yoza K, Ohtsubo K, Kramer KJ. Effects of proteinase inhibitors on digestive proteinases and growth of the red flour beetle, Tribolium castaneum (Herbst) (Coleoptera: Tenebrionidae). Comparative biochemistry and physiology Toxicology & pharmacology : CBP. 2003;134(4):481–90.Duan X, Li X, Xue Q, Abo-El-Saad M, Xu D, Wu R. Transgenic rice plants harboring an introduced potato proteinase inhibitor II gene are insect resistant. Nat Biotechnol. 1996;14(4):494–8.Pompermayer P, Lopes AR, Terra WR, Parra JRP, Falco MC, Silva-Filho MC. Effects of soybean proteinase inhibitor on development, survival and reproductive potential of the sugarcane borer, Diatraea saccharalis. Entomologia Experimentalis et Applicata. 2001;99(1):79–85.Alfonso-Rubí J, Ortego F, Castañera P, Carbonero P, Díaz I. Transgenic expression of trypsin inhibitor CMe from barley in indica and japonica rice, confers resistance to the rice weevil Sitophilus oryzae. Transgenic Res. 2003;12(1):23–31.Altpeter F, Diaz I, Mc Auslane H, Gaddour K, Carbonero P, Vasil IK. Increased insect resistance in transgenic wheat stably expressing trypsin inhibitor CMe. Mol Breed. 1999;5(1):53–63.Martinez M, Cambra I, Carrillo L, Diaz-Mendoza M, Diaz I. Characterization of the entire cystatin gene family in barley and their target cathepsin L-like cysteine-proteases, partners in the hordein mobilization during seed germination. Plant Physiol. 2009;151(3):1531–45.FAOSTAT: Food and Organization of the United Nations, statistics division. 2017.Mueller LA, Lankhorst RK, Tanksley SD, Giovannoni JJ, White R, Vrebalov J, Fei Z, van Eck J, Buels R, Mills AA, et al. A snapshot of the emerging tomato genome sequence. The Plant Genome. 2009;2(1):78–92.Ellul P, Garcia-Sogo B, Pineda B, Rios G, Roig L, Moreno V. The ploidy level of transgenic plants in agrobacterium-mediated transformation of tomato cotyledons (Lycopersicon esculentum L. mill.) is genotype and procedure dependent. Theor Appl Genet. 2003;106(2):231–8.Pino LE, Lombardi-Crestana S, Azevedo MS, Scotton DC, Borgo L, Quecini V, Figueira A, Peres LE. The Rg1 allele as a valuable tool for genetic transformation of the tomato'Micro-Tom'model system. Plant Methods. 2010;6(1):23.Sharma MK, Solanke AU, Jani D, Singh Y, Sharma AK. A simple and efficient agrobacterium-mediated procedure for transformation of tomato. J Biosci. 2009;34(3):423–33.van Eck J, Kirk DD, Walmsley AM. Tomato (Lycopersicum esculentum). Agrobacterium Protocols. 2006:459–74.Dan Y, Yan H, Munyikwa T, Dong J, Zhang Y, Armstrong CL. MicroTom—a high-throughput model transformation system for functional genomics. Plant Cell Rep. 2006;25(5):432–41.Pearce G, Strydom D, Johnson S, Ryan CA. A polypeptide from tomato leaves induces wound-inducible proteinase inhibitor proteins. Science. 1991;253(5022):895–9.Farmer EE, Ryan CA. Interplant communication: airborne methyl jasmonate induces synthesis of proteinase inhibitors in plant leaves. Proc Natl Acad Sci. 1990;87(19):7713–6.Bosch M, Wright LP, Gershenzon J, Wasternack C, Hause B, Schaller A, Stintzi A. Jasmonic acid and its precursor 12-oxophytodienoic acid control different aspects of constitutive and induced herbivore defenses in tomato. Plant Physiol. 2014;166(1):396–410.Christensen SA, Nemchenko A, Borrego E, Murray I, Sobhy IS, Bosak L, DeBlasio S, Erb M, Robert CA, Vaughn KA. The maize lipoxygenase, ZmLOX10, mediates green leaf volatile, jasmonate and herbivore-induced plant volatile production for defense against insect attack. Plant J. 2013;74(1):59–73.Boughton AJ, Hoover K, Felton GW. Methyl jasmonate application induces increased densities of glandular trichomes on tomato, Lycopersicon esculentum. J Chem Ecol. 2005;31(9):2211–6.Li L, Zhao Y, McCaig BC, Wingerd BA, Wang J, Whalon ME, Pichersky E, Howe GA. The tomato homolog of CORONATINE-INSENSITIVE1 is required for the maternal control of seed maturation, jasmonate-signaled defense responses, and glandular trichome development. Plant Cell. 2004;16(1):126–43.Peiffer M, Tooker JF, Luthe DS, Felton GW. Plants on early alert: glandular trichomes as sensors for insect herbivores. New Phytol. 2009;184(3):644–56.Bryant J, Green TR, Gurusaddaiah T, Ryan CA. Proteinase inhibitor II from potatoes: isolation and characterization of its protomer components. Biochemistry. 1976;15(16):3418–24.Johnson R, Narvaez J, An G, Ryan C. Expression of proteinase inhibitors I and II in transgenic tobacco plants: effects on natural defense against Manduca sexta larvae. Proc Natl Acad Sci. 1989;86(24):9871–5.Klopfenstein NB, Allen KK, Avila FJ, Heuchelin SA, Martinez J, Carman RC, Hall RB, Hart ER, McNabb HS. Proteinase inhibitor II gene in transgenic poplar: chemical and biological assays. Biomass Bioenergy. 1997;12(4):299–311.Dicke M, Takabayashi J, Posthumus MA, Schütte C, Krips OE. Plant—Phytoseiid interactions mediated by herbivore-induced plant volatiles: variation in production of cues and in responses of predatory mites. Exp Appl Acarol. 1998;22(6):311–33.Turlings T, Loughrin JH, Mccall PJ, Röse U, Lewis WJ, Tumlinson JH. How caterpillar-damaged plants protect themselves by attracting parasitic wasps. Proc Natl Acad Sci. 1995;92(10):4169–74.Levin DA. The role of trichomes in plant defense. Q Rev Biol. 1973;48(1, Part 1):3–15.Traw BM, Dawson TE. Differential induction of trichomes by three herbivores of black mustard. Oecologia. 2002;131(4):526–32.Handley R, Ekbom B, Ågren J. Variation in trichome density and resistance against a specialist insect herbivore in natural populations of Arabidopsis thaliana. Ecological Entomology. 2005;30(3):284–92.Valverde P, Fornoni J, NÚÑez-Farfán J. Defensive role of leaf trichomes in resistance to herbivorous insects in Datura stramonium. J Evol Biol. 2001;14(3):424–32.Elle E, Hare J. Environmentally induced variation in floral traits affects the mating system in Datura wrightii. Funct Ecol. 2002;16(1):79–88.Agrawal AA. Benefits and costs of induced plant defense for Lepidium virginicum (Brassicaceae). Ecology. 2000;81(7):1804–13.Dalin P, Björkman C. Adult beetle grazing induces willow trichome defence against subsequent larval feeding. Oecologia. 2003;134(1):112–8.Campos MR, Biondi A, Adiga A, Guedes RN, Desneux N. From the western Palaearctic region to beyond: Tuta absoluta 10 years after invading Europe. J Pest Sci. 2017:1–10.Desneux N, Wajnberg E, Wyckhuys KA, Burgio G, Arpaia S, Narváez-Vasquez CA, González-Cabrera J, Ruescas DC, Tabone E, Frandon J. Biological invasion of European tomato crops by Tuta absoluta: ecology, geographic expansion and prospects for biological control. J Pest Sci. 2010;83(3):197–215.Urbaneja A, Montón H, Mollá O. Suitability of the tomato borer Tuta absoluta as prey for Macrolophus pygmaeus and Nesidiocoris tenuis. J Appl Entomol. 2009;133(4):292–6.Pérez-Hedo M, Urbaneja A. Prospects for predatory mirid bugs as biocontrol agents of aphids in sweet peppers. J Pest Sci. 2015;88(1):65–73.Hewitt E. The composition of the nutrient solution. Sand and water culture methods used in the study of plant Nutrition. 1966:187–246.Karimi M, Inzé D, Depicker A. GATEWAY™ vectors for agrobacterium-mediated plant transformation. Trends Plant Sci. 2002;7(5):193–5.Martín-Trillo M, Grandío EG, Serra F, Marcel F, Rodríguez-Buey ML, Schmitz G, Theres K, Bendahmane A, Dopazo H, Cubas P. Role of tomato BRANCHED1-like genes in the control of shoot branching. Plant J. 2011;67(4):701–14.Vargas C. Observations on the bionomics and natural enemies of the tomato moth, Gnorimoschema absoluta (Meyrick)(Lep. Gelechiidae). Idesia. 1970;1:75–110.Mollá O, Biondi A, Alonso-Valiente M, Urbaneja A. A comparative life history study of two mirid bugs preying on Tuta absoluta and Ephestia kuehniella eggs on tomato crops: implications for biological control. BioControl. 2014;59(2):175–83.Abbot C. Solar variation and the weather. Science (New York, NY). 1925;62(1605):307.Bradford MM. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem. 1976;72(1–2):248–54.Bouagga S, Urbaneja A, Rambla JL, Granell A, Pérez-Hedo M. Orius laevigatus strengthens its role as a biological control agent by inducing plant defenses. J Pest Sci. 2017:1–10.Hilder VA, Gatehouse AM, Sheerman SE, Barker RF, Boulter D. A novel mechanism of insect resistance engineered into tobacco. Nature. 1987;330(6144):160–3.Saikia K, Kalita J, Saikia PK. Biology and life cycle generations of common crow–Euploea core core Cramer (Lepidoptera: Danainae) on Hemidesmus indica host plant. Int J NeBIO. 2010;1(3):28–37.Srinivasan A, Giri AP, Gupta VS. Structural and functional diversities in lepidopteran serine proteases. Cellular & molecular biology letters. 2006;11(1):132.Tamhane VA, Chougule NP, Giri AP, Dixit AR, Sainani MN, Gupta VS. In vivo and in vitro effect of Capsicum annum proteinase inhibitors on Helicoverpa armigera gut proteinases. Biochimica et Biophysica Acta (BBA)-General Subjects. 2005;1722(2):156–67.Telang M, Srinivasan A, Patankar A, Harsulkar A, Joshi V, Damle A, Deshpande V, Sainani M, Ranjekar P, Gupta G. Bitter gourd proteinase inhibitors: potential growth inhibitors of Helicoverpa armigera and Spodoptera litura. Phytochemistry. 2003;63(6):643–52.Damle MS, Giri AP, Sainani MN, Gupta VS. Higher accumulation of proteinase inhibitors in flowers than leaves and fruits as a possible basis for differential feeding preference of Helicoverpa armigera on tomato (Lycopersicon esculentum mill, cv. Dhanashree). Phytochemistry. 2005;66(22):2659–67.De Leo F, Bonadé-Bottino MA, Ceci LR, Gallerani R, Jouanin L. Opposite effects on spodoptera littoralis larvae of high expression level of a trypsin proteinase inhibitor in transgenic plants. Plant Physiol. 1998;118(3):997–1004.Rahbé Y, Ferrasson E, Rabesona H, Quillien L. Toxicity to the pea aphid Acyrthosiphon pisum of anti-chymotrypsin isoforms and fragments of Bowman–Birk protease inhibitors from pea seeds. Insect Biochem Mol Biol. 2003;33(3):299–306.Luo M, Ding L-W, Ge Z-J, Wang Z-Y, Hu B-L, Yang X-B, Sun Q-Y, Xu Z-F. The characterization of SaPIN2b, a plant trichome-localized proteinase inhibitor from Solanum americanum. Int J Mol Sci. 2012;13(11):15162–76.Dalin P, Ågren J, Björkman C, Huttunen P, Kärkkäinen K. Leaf trichome formation and plant resistance to herbivory. In: Dordrecht SA, editor. Induced plant resistance to herbivory. Netherlands: Springer; 2008. p. 89–105.Gonzáles WL, Negritto MA, Suárez LH, Gianoli E. Induction of glandular and non-glandular trichomes by damage in leaves of Madia sativa under contrasting water regimes. Acta Oecol. 2008;33(1):128–32.Luo M, Wang Z, Li H, Xia K-F, Cai Y, Xu Z-F. Overexpression of a weed (Solanum americanum) proteinase inhibitor in transgenic tobacco results in increased glandular trichome density and enhanced resistance to Helicoverpa armigera and Spodoptera litura. Int J Mol Sci. 2009;10(4):1896–910.Björkman C, Dalin P, Ahrné K. Leaf trichome responses to herbivory in willows: induction, relaxation and costs. New Phytol. 2008;179(1):176–84.Duffey S. Plant glandular trichomes: their partial role in defence against insects. Insects and the plant surface. London: Edward Arnold; 1986. p. 151–72.James DG. Further field evaluation of synthetic herbivore-induced plan volatiles as attractants for beneficial insects. J Chem Ecol. 2005;31(3):481–95.Naselli M, Zappalà L, Gugliuzzo A, Garzia GT, Biondi A, Rapisarda C, Cincotta F, Condurso C, Verzera A, Siscaro G. Olfactory response of the zoophytophagous mirid Nesidiocoris tenuis to tomato and alternative host plants. Arthropod Plant Interact. 2017;11(2):121–31.Tholl D. Biosynthesis and biological functions of terpenoids in plants. Advances in Biochemical Engineering and Biotechnology. 2015;148:63-106.Lange BM, Rujan T, Martin W, Croteau R. Isoprenoid biosynthesis: the evolution of two ancient and distinct pathways across genomes. Proc Natl Acad Sci. 2000;97(24):13172–7.Dudareva N, Klempien A, Muhlemann JK, Kaplan I. Biosynthesis, function and metabolic engineering of plant volatile organic compounds. New Phytol. 2013;198(1):16–32.Razal RA, Ellis S, Singh S, Lewis NG, Towers GHN. Nitrogen recycling in phenylpropanoid metabolism. Phytochemistry. 1996;41(1):31–5.Effmert U, Große J, Röse US, Ehrig F, Kägi R, Piechulla B. Volatile composition, emission pattern, and localization of floral scent emission in Mirabilis jalapa (Nyctaginaceae). Am J Bot. 2005;92(1):2–12.Guterman I, Masci T, Chen X, Negre F, Pichersky E, Dudareva N, Weiss D, Vainstein A. Generation of phenylpropanoid pathway-derived volatiles in transgenic plants: rose alcohol acetyltransferase produces phenylethyl acetate and benzyl acetate in petunia flowers. Plant Mol Biol. 2006;60(4):555–63.Vogel JT, Tan B-C, McCarty DR, Klee HJ. The carotenoid cleavage dioxygenase 1 enzyme has broad substrate specificity, cleaving multiple carotenoids at two different bond positions. J Biol Chem. 2008;283(17):11364–73.Colquhoun TA, Kim JY, Wedde AE, Levin LA, Schmitt KC, Schuurink RC, Clark DG. PhMYB4 fine-tunes the floral volatile signature of petunia×hybrida through PhC4H. J Exp Bot. 2011;62(3):1133–43.Kolosova N, Gorenstein N, Kish CM, Dudareva N. Regulation of circadian methyl benzoate emission in diurnally and nocturnally emitting plants. Plant Cell. 2001;13(10):2333–47.Maeda H, Shasany AK, Schnepp J, Orlova I, Taguchi G, Cooper BR, Rhodes D, Pichersky E, Dudareva N. RNAi suppression of arogenate dehydratase1 reveals that phenylalanine is synthesized predominantly via the arogenate pathway in petunia petals. Plant Cell. 2010;22(3):832–49.Lerdau M, Gray D. Ecology and evolution of light-dependent and light-independent phytogenic volatile organic carbon. New Phytol. 2003;157(2):199–211.Martin DM, Gershenzon J, Bohlmann J. Induction of volatile terpene biosynthesis and diurnal emission by methyl jasmonate in foliage of Norway spruce. Plant Physiol. 2003;132(3):1586–99.van Doorn WG, Woltering EJ. Physiology and molecular biology of petal senescence. J Exp Bot. 2008;59(3):453–80

Finishing the euchromatic sequence of the human genome

The sequence of the human genome encodes the genetic instructions for human physiology, as well as rich information about human evolution. In 2001, the International Human Genome Sequencing Consortium reported a draft sequence of the euchromatic portion of the human genome. Since then, the international collaboration has worked to convert this draft into a genome sequence with high accuracy and nearly complete coverage. Here, we report the result of this finishing process. The current genome sequence (Build 35) contains 2.85 billion nucleotides interrupted by only 341 gaps. It covers ∼99% of the euchromatic genome and is accurate to an error rate of ∼1 event per 100,000 bases. Many of the remaining euchromatic gaps are associated with segmental duplications and will require focused work with new methods. The near-complete sequence, the first for a vertebrate, greatly improves the precision of biological analyses of the human genome including studies of gene number, birth and death. Notably, the human enome seems to encode only 20,000-25,000 protein-coding genes. The genome sequence reported here should serve as a firm foundation for biomedical research in the decades ahead