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Volume 104(49);  December 4, 2007
Inaugural Article
A mathematical tool for exploring the dynamics of biological networks
Paolo E. Barbano, Marina Spivak, Marc Flajolet, Angus C. Nairn, Paul Greengard, and Leslie Greengard
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19169–19174. Published online 2007 November 21. doi: 10.1073/pnas.0709955104.
PMCID: PMC2148263
This Week in PNAS
In This Issue
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19161–19162. doi: 10.1073/iti4907104.
PMCID: PMC2148259
Commentaries
The discovery of kelp forests in deep-water habitats of tropical regions
Bernabé Santelices
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19163–19164. Published online 2007 November 27. doi: 10.1073/pnas.0708963104.
PMCID: PMC2148260
Clinical implications of the loss of vasoactive nitric oxide during red blood cell storage
Joseph Bonaventura
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19165–19166. Published online 2007 November 28. doi: 10.1073/pnas.0708871105.
PMCID: PMC2148261
Savanna chimpanzees dig for food
W. C. McGrew
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19167–19168. Published online 2007 November 28. doi: 10.1073/pnas.0710330105.
PMCID: PMC2148262
Physical Sciences
Applied Mathematics
A mathematical tool for exploring the dynamics of biological networks
Paolo E. Barbano, Marina Spivak, Marc Flajolet, Angus C. Nairn, Paul Greengard, and Leslie Greengard
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19169–19174. Published online 2007 November 21. doi: 10.1073/pnas.0709955104.
PMCID: PMC2148263
Subnetwork analysis reveals dynamic features of complex (bio)chemical networks
Carsten Conradi, Dietrich Flockerzi, Jörg Raisch, and Jörg Stelling
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19175–19180. Published online 2007 November 27. doi: 10.1073/pnas.0705731104.
PMCID: PMC2148257
Chemistry
Axial ligand tuning of a nonheme iron(IV)–oxo unit for hydrogen atom abstraction
Chivukula V. Sastri, Jimin Lee, Kyungeun Oh, Yoon Jin Lee, Junghyun Lee, Timothy A. Jackson, Kallol Ray, Hajime Hirao, Woonsup Shin, Jason A. Halfen, Jinheung Kim, Lawrence Que, Jr, Sason Shaik, and Wonwoo Nam
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19181–19186. Published online 2007 November 28. doi: 10.1073/pnas.0709471104.
PMCID: PMC2148264
Physics
Symmetry, shape, and order
Antonio Trovato, Trinh Xuan Hoang, Jayanth R. Banavar, and Amos Maritan
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19187–19192. Published online 2007 November 21. doi: 10.1073/pnas.0707523104.
PMCID: PMC2148265
Does the h index have predictive power?
J. E. Hirsch
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19193–19198. Published online 2007 November 26. doi: 10.1073/pnas.0707962104.
PMCID: PMC2148266
Statistics
A forest-based approach to identifying gene and gene–gene interactions
Xiang Chen, Ching-Ti Liu, Meizhuo Zhang, and Heping Zhang
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19199–19203. Published online 2007 November 28. doi: 10.1073/pnas.0709868104.
PMCID: PMC2148267
Biological Sciences
Anthropology
From the Cover:
Savanna chimpanzees use tools to harvest the underground storage organs of plants
R. Adriana Hernandez-Aguilar, Jim Moore, and Travis Rayne Pickering
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19210–19213. Published online 2007 November 21. doi: 10.1073/pnas.0707929104.
PMCID: PMC2148269
Global climate change, war, and population decline in recent human history
David D. Zhang, Peter Brecke, Harry F. Lee, Yuan-Qing He, and Jane Zhang
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19214–19219. Published online 2007 November 28. doi: 10.1073/pnas.0703073104.
PMCID: PMC2148270
A new Late Miocene great ape from Kenya and its implications for the origins of African great apes and humans
Yutaka Kunimatsu, Masato Nakatsukasa, Yoshihiro Sawada, Tetsuya Sakai, Masayuki Hyodo, Hironobu Hyodo, Tetsumaru Itaya, Hideo Nakaya, Haruo Saegusa, Arnaud Mazurier, Mototaka Saneyoshi, Hiroshi Tsujikawa, Ayumi Yamamoto, and Emma Mbua
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19220–19225. Published online 2007 November 16. doi: 10.1073/pnas.0706190104.
PMCID: PMC2148271
Biochemistry
A mathematical tool for exploring the dynamics of biological networks
Paolo E. Barbano, Marina Spivak, Marc Flajolet, Angus C. Nairn, Paul Greengard, and Leslie Greengard
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19169–19174. Published online 2007 November 21. doi: 10.1073/pnas.0709955104.
PMCID: PMC2148263
JARID1B is a histone H3 lysine 4 demethylase up-regulated in prostate cancer
Yang Xiang, Ziqi Zhu, Gang Han, Xiaolei Ye, Bo Xu, Zhouchun Peng, Yuanjun Ma, Yi Yu, Hanqing Lin, Adele Pin Chen, and Charlie Degui Chen
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19226–19231. Published online 2007 November 28. doi: 10.1073/pnas.0700735104.
PMCID: PMC2148272
Directed selection of a conformational antibody domain that prevents mature amyloid fibril formation by stabilizing Aβ protofibrils
Gernot Habicht, Christian Haupt, Ralf P. Friedrich, Peter Hortschansky, Carsten Sachse, Jessica Meinhardt, Karin Wieligmann, Gerald P. Gellermann, Michael Brodhun, Jürgen Götz, Karl-Jürgen Halbhuber, Christoph Röcken, Uwe Horn, and Marcus Fändrich
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19232–19237. Published online 2007 November 27. doi: 10.1073/pnas.0703793104.
PMCID: PMC2148273
Epidermal growth factor receptor juxtamembrane region regulates allosteric tyrosine kinase activation
Kristina W. Thiel and Graham Carpenter
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19238–19243. Published online 2007 November 27. doi: 10.1073/pnas.0703854104.
PMCID: PMC2148274
Antiinflammatory glucocorticoid receptor ligand with reduced side effects exhibits an altered protein–protein interaction profile
Jeffrey N. Miner, Bob Ardecky, Khalid Benbatoul, Kimberly Griffiths, Christopher J. Larson, Dale E. Mais, Keith Marschke, Jon Rosen, Eric Vajda, Lin Zhi, and Andres Negro-Vilar
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19244–19249. Published online 2007 November 21. doi: 10.1073/pnas.0705517104.
PMCID: PMC2148275
Mitochondrial origin-binding protein UMSBP mediates DNA replication and segregation in trypanosomes
Neta Milman, Shawn A. Motyka, Paul T. Englund, Derrick Robinson, and Joseph Shlomai
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19250–19255. Published online 2007 November 28. doi: 10.1073/pnas.0706858104.
PMCID: PMC2148276
Protein–protein interaction inhibition (2P2I) combining high throughput and virtual screening: Application to the HIV-1 Nef protein
Stéphane Betzi, Audrey Restouin, Sandrine Opi, Stefan T. Arold, Isabelle Parrot, Françoise Guerlesquin, Xavier Morelli, and Yves Collette
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19256–19261. Published online 2007 November 27. doi: 10.1073/pnas.0707130104.
PMCID: PMC2148277
Laforin is a glycogen phosphatase, deficiency of which leads to elevated phosphorylation of glycogen in vivo
Vincent S. Tagliabracci, Julie Turnbull, Wei Wang, Jean-Marie Girard, Xiaochu Zhao, Alexander V. Skurat, Antonio V. Delgado-Escueta, Berge A. Minassian, Anna A. DePaoli-Roach, and Peter J. Roach
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19262–19266. Published online 2007 November 26. doi: 10.1073/pnas.0707952104.
PMCID: PMC2148278
A novel polydnavirus protein inhibits the insect prophenoloxidase activation pathway
Markus H. Beck and Michael R. Strand
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19267–19272. Published online 2007 November 21. doi: 10.1073/pnas.0708056104.
PMCID: PMC2148279
The all-trans-retinal dimer series of lipofuscin pigments in retinal pigment epithelial cells in a recessive Stargardt disease model
So R. Kim, Young P. Jang, Steffen Jockusch, Nathan E. Fishkin, Nicholas J. Turro, and Janet R. Sparrow
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19273–19278. Published online 2007 November 28. doi: 10.1073/pnas.0708714104.
PMCID: PMC2148280
Structure of the Nitrosomonas europaea Rh protein
Xin Li, Sanjay Jayachandran, Hiep-Hoa T. Nguyen, and Michael K. Chan
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19279–19284. Published online 2007 November 26. doi: 10.1073/pnas.0709710104.
PMCID: PMC2148281
Regulation of hypothalamic malonyl-CoA by central glucose and leptin
Michael J. Wolfgang, Seung Hun Cha, Aniket Sidhaye, Shigeru Chohnan, Gary Cline, Gerald I. Shulman, and M. Daniel Lane
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19285–19290. Published online 2007 November 21. doi: 10.1073/pnas.0709778104.
PMCID: PMC2148282
A biochemical approach to identifying microRNA targets
Fedor V. Karginov, Cecilia Conaco, Zhenyu Xuan, Bryan H. Schmidt, Joel S. Parker, Gail Mandel, and Gregory J. Hannon
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19291–19296. Published online 2007 November 27. doi: 10.1073/pnas.0709971104.
PMCID: PMC2148283
Biophysics
Construction of effective free energy landscape from single-molecule time series
Akinori Baba and Tamiki Komatsuzaki
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19297–19302. Published online 2007 November 28. doi: 10.1073/pnas.0704167104.
PMCID: PMC2148284
The 1.3-Å resolution structure of Nitrosomonas europaea Rh50 and mechanistic implications for NH3 transport by Rhesus family proteins
Domenico Lupo, Xiao-Dan Li, Anne Durand, Takashi Tomizaki, Baya Cherif-Zahar, Giorgio Matassi, Mike Merrick, and Fritz K. Winkler
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19303–19308. Published online 2007 November 21. doi: 10.1073/pnas.0706563104.
PMCID: PMC2148285
Disulfide bond influence on protein structural dynamics probed with 2D-IR vibrational echo spectroscopy
Haruto Ishikawa, Seongheun Kim, Kyungwon Kwak, Keisuke Wakasugi, and Michael D. Fayer
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19309–19314. Published online 2007 November 27. doi: 10.1073/pnas.0709760104.
PMCID: PMC2148286
Cryo-EM study of the spinach chloroplast ribosome reveals the structural and functional roles of plastid-specific ribosomal proteins
Manjuli R. Sharma, Daniel N. Wilson, Partha P. Datta, Chandana Barat, Frank Schluenzen, Paola Fucini, and Rajendra K. Agrawal
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19315–19320. Published online 2007 November 27. doi: 10.1073/pnas.0709856104.
PMCID: PMC2148287
Mechanoenzymes under superstall and large assisting loads reveal structural features
Denis Tsygankov and Michael E. Fisher
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19321–19326. Published online 2007 November 28. doi: 10.1073/pnas.0709911104.
PMCID: PMC2148288
Cell Biology
Subnetwork analysis reveals dynamic features of complex (bio)chemical networks
Carsten Conradi, Dietrich Flockerzi, Jörg Raisch, and Jörg Stelling
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19175–19180. Published online 2007 November 27. doi: 10.1073/pnas.0705731104.
PMCID: PMC2148257
Matrix metalloproteinase 7 controls pancreatic acinar cell transdifferentiation by activating the Notch signaling pathway
Eric T. Sawey, Johnny A. Johnson, and Howard C. Crawford
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19327–19332. Published online 2007 November 27. doi: 10.1073/pnas.0705953104.
PMCID: PMC2148289
Essential role of Epac2/Rap1 signaling in regulation of insulin granule dynamics by cAMP
Tadao Shibasaki, Harumi Takahashi, Takashi Miki, Yasuhiro Sunaga, Kimio Matsumura, Mami Yamanaka, Changliang Zhang, Atsuko Tamamoto, Takaya Satoh, Jun-ichi Miyazaki, and Susumu Seino
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19333–19338. Published online 2007 November 26. doi: 10.1073/pnas.0707054104.
PMCID: PMC2148290
Structural differentiation of skeletal muscle fibers in the absence of innervation in humans
Simona Boncompagni, Helmut Kern, Katia Rossini, Christian Hofer, Winfried Mayr, Ugo Carraro, and Feliciano Protasi
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19339–19344. Published online 2007 November 27. doi: 10.1073/pnas.0709061104.
PMCID: PMC2148291
Beyond aerobic glycolysis: Transformed cells can engage in glutamine metabolism that exceeds the requirement for protein and nucleotide synthesis
Ralph J. DeBerardinis, Anthony Mancuso, Evgueni Daikhin, Ilana Nissim, Marc Yudkoff, Suzanne Wehrli, and Craig B. Thompson
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19345–19350. Published online 2007 November 21. doi: 10.1073/pnas.0709747104.
PMCID: PMC2148292
Developmental Biology
DNA methylation, insulin resistance, and blood pressure in offspring determined by maternal periconceptional B vitamin and methionine status
Kevin D. Sinclair, Cinzia Allegrucci, Ravinder Singh, David S. Gardner, Sonia Sebastian, Jayson Bispham, Alexandra Thurston, John F. Huntley, William D. Rees, Christopher A. Maloney, Richard G. Lea, Jim Craigon, Tom G. McEvoy, and Lorraine E. Young
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19351–19356. Published online 2007 November 27. doi: 10.1073/pnas.0707258104.
PMCID: PMC2148293
From the Cover:
Blocking LIF action in the uterus by using a PEGylated antagonist prevents implantation: A nonhormonal contraceptive strategy
Christine A. White, Jian-Guo Zhang, Lois A. Salamonsen, Manuel Baca, W. Douglas Fairlie, Donald Metcalf, Nicos A. Nicola, Lorraine Robb, and Evdokia Dimitriadis
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19357–19362. Published online 2007 November 27. doi: 10.1073/pnas.0710110104.
PMCID: PMC2148294
Evolution
Using plastid genome-scale data to resolve enigmatic relationships among basal angiosperms
Michael J. Moore, Charles D. Bell, Pamela S. Soltis, and Douglas E. Soltis
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19363–19368. Published online 2007 November 28. doi: 10.1073/pnas.0708072104.
PMCID: PMC2148295
Analysis of 81 genes from 64 plastid genomes resolves relationships in angiosperms and identifies genome-scale evolutionary patterns
Robert K. Jansen, Zhengqiu Cai, Linda A. Raubeson, Henry Daniell, Claude W. dePamphilis, James Leebens-Mack, Kai F. Müller, Mary Guisinger-Bellian, Rosemarie C. Haberle, Anne K. Hansen, Timothy W. Chumley, Seung-Bum Lee, Rhiannon Peery, Joel R. McNeal, Jennifer V. Kuehl, and Jeffrey L. Boore
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19369–19374. Published online 2007 November 28. doi: 10.1073/pnas.0709121104.
PMCID: PMC2148296
Long-term evolution of transposable elements
Arnaud Le Rouzic, Thibaud S. Boutin, and Pierre Capy
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19375–19380. Published online 2007 November 26. doi: 10.1073/pnas.0705238104.
PMCID: PMC2148297
From the Cover:
The signal environment is more important than diet or chemical specialization in the evolution of warning coloration
Kathleen L. Prudic, Jeffrey C. Oliver, and Felix A. H. Sperling
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19381–19386. Published online 2007 November 20. doi: 10.1073/pnas.0705478104.
PMCID: PMC2148298
Genetic variation in the cysteine biosynthesis pathway causes sensitivity to pharmacological compounds
Hyun Seok Kim and Justin C. Fay
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19387–19391. Published online 2007 November 27. doi: 10.1073/pnas.0708194104.
PMCID: PMC2148299
Parallel genomic evolution and metabolic interdependence in an ancient symbiosis
John P. McCutcheon and Nancy A. Moran
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19392–19397. Published online 2007 November 28. doi: 10.1073/pnas.0708855104.
PMCID: PMC2148300
Extensive simple sequence repeat genotyping of potato landraces supports a major reevaluation of their gene pool structure and classification
David M. Spooner, Jorge Núñez, Guillermo Trujillo, María del Rosario Herrera, Frank Guzmán, and Marc Ghislain
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19398–19403. Published online 2007 November 27. doi: 10.1073/pnas.0709796104.
PMCID: PMC2148301
Evolutionary plasticity of developmental gene regulatory network architecture
Veronica F. Hinman and Eric H. Davidson
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19404–19409. Published online 2007 November 27. doi: 10.1073/pnas.0709994104.
PMCID: PMC2148302
Genetics
A forest-based approach to identifying gene and gene–gene interactions
Xiang Chen, Ching-Ti Liu, Meizhuo Zhang, and Heping Zhang
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19199–19203. Published online 2007 November 28. doi: 10.1073/pnas.0709868104.
PMCID: PMC2148267
Pseudouridylation of helix 69 of 23S rRNA is necessary for an effective translation termination
Morten Ejby, Michael A. Sørensen, and Steen Pedersen
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19410–19415. Published online 2007 November 21. doi: 10.1073/pnas.0706558104.
PMCID: PMC2148303
Integrated epigenomic analyses of neuronal MeCP2 reveal a role for long-range interaction with active genes
Dag H. Yasui, Sailaja Peddada, Mark C. Bieda, Roxanne O. Vallero, Amber Hogart, Raman P. Nagarajan, Karen N. Thatcher, Peggy J. Farnham, and Janine M. LaSalle
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19416–19421. Published online 2007 November 27. doi: 10.1073/pnas.0707442104.
PMCID: PMC2148304
A knockin mouse model of the Bardet–Biedl syndrome 1 M390R mutation has cilia defects, ventriculomegaly, retinopathy, and obesity
Roger E. Davis, Ruth E. Swiderski, Kamal Rahmouni, Darryl Y. Nishimura, Robert F. Mullins, Khristofor Agassandian, Alisdair R. Philp, Charles C. Searby, Michael P. Andrews, Stewart Thompson, Christopher J. Berry, Daniel R. Thedens, Baoli Yang, Robert M. Weiss, Martin D. Cassell, Edwin M. Stone, and Val C. Sheffield
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19422–19427. Published online 2007 November 21. doi: 10.1073/pnas.0708571104.
PMCID: PMC2148305
From the Cover:
Distinguishing protein-coding and noncoding genes in the human genome
Michele Clamp, Ben Fry, Mike Kamal, Xiaohui Xie, James Cuff, Michael F. Lin, Manolis Kellis, Kerstin Lindblad-Toh, and Eric S. Lander
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19428–19433. Published online 2007 November 26. doi: 10.1073/pnas.0709013104.
PMCID: PMC2148306
Immunology
Histamine is stored in mast cells of most evolutionarily advanced fish and regulates the fish inflammatory response
Iván Mulero, M. Pilar Sepulcre, José Meseguer, Alfonsa García-Ayala, and Victoriano Mulero
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19434–19439. Published online 2007 November 27. doi: 10.1073/pnas.0704535104.
PMCID: PMC2148307
Chronic stimulation of Nod2 mediates tolerance to bacterial products
Matija Hedl, Jing Li, Judy H. Cho, and Clara Abraham
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19440–19445. Published online 2007 November 21. doi: 10.1073/pnas.0706097104.
PMCID: PMC2148308
CD4+CD25+Foxp3+ regulatory T cells induce alternative activation of human monocytes/macrophages
Machteld M. Tiemessen, Ann L. Jagger, Hayley G. Evans, Martijn J. C. van Herwijnen, Susan John, and Leonie S. Taams
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19446–19451. Published online 2007 November 27. doi: 10.1073/pnas.0706832104.
PMCID: PMC2148309
Assembly and structural properties of glucocorticoid-induced TNF receptor ligand: Implications for function
Kausik Chattopadhyay, Udupi A. Ramagopal, Arunika Mukhopadhaya, Vladimir N. Malashkevich, Teresa P. DiLorenzo, Michael Brenowitz, Stanley G. Nathenson, and Steven C. Almo
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19452–19457. Published online 2007 November 26. doi: 10.1073/pnas.0709264104.
PMCID: PMC2148310
B7-H3 and B7x are highly expressed in human prostate cancer and associated with disease spread and poor outcome
Xingxing Zang, R. Houston Thompson, Hikmat A. Al-Ahmadie, Angel M. Serio, Victor E. Reuter, James A. Eastham, Peter T. Scardino, Padmanee Sharma, and James P. Allison
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19458–19463. Published online 2007 November 27. doi: 10.1073/pnas.0709802104.
PMCID: PMC2148311
Medical Sciences
Syndecan-3 is a dendritic cell-specific attachment receptor for HIV-1
Lot de Witte, Michael Bobardt, Udayan Chatterji, Gisèle Degeest, Guido David, Teunis B. H. Geijtenbeek, and Philippe Gallay
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19464–19469. Published online 2007 November 26. doi: 10.1073/pnas.0703747104.
PMCID: PMC2148312
Dynamic interplay between nitration and phosphorylation of tubulin cofactor B in the control of microtubule dynamics
Suresh K. Rayala, Emil Martin, Iraida G. Sharina, Poonam R. Molli, Xiaoping Wang, Raymond Jacobson, Ferid Murad, and Rakesh Kumar
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19470–19475. Published online 2007 November 28. doi: 10.1073/pnas.0705149104.
PMCID: PMC2148313
Silencing of OB-RGRP in mouse hypothalamic arcuate nucleus increases leptin receptor signaling and prevents diet-induced obesity
Cyril Couturier, Chamsy Sarkis, Karin Séron, Sandrine Belouzard, Patty Chen, Aude Lenain, Laetitia Corset, Julie Dam, Virginie Vauthier, Anne Dubart, Jacques Mallet, Philippe Froguel, Yves Rouillé, and Ralf Jockers
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19476–19481. Published online 2007 November 27. doi: 10.1073/pnas.0706671104.
PMCID: PMC2148314
HDAC inhibitor PCI-24781 decreases RAD51 expression and inhibits homologous recombination
Shanthi Adimoolam, Mint Sirisawad, Jun Chen, Patti Thiemann, James M. Ford, and Joseph J. Buggy
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19482–19487. Published online 2007 November 27. doi: 10.1073/pnas.0707828104.
PMCID: PMC2148315
Tumor cell-selective regulation of NOXA by c-MYC in response to proteasome inhibition
Mikhail A. Nikiforov, MaryBeth Riblett, Wen-Hua Tang, Vladimir Gratchouck, Dazhong Zhuang, Yolanda Fernandez, Monique Verhaegen, Sooryanarayana Varambally, Arul M. Chinnaiyan, Andrzej J. Jakubowiak, and Maria S. Soengas
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19488–19493. Published online 2007 November 27. doi: 10.1073/pnas.0708380104.
PMCID: PMC2148316
In vivo multiphoton microscopy of NADH and FAD redox states, fluorescence lifetimes, and cellular morphology in precancerous epithelia
Melissa C. Skala, Kristin M. Riching, Annette Gendron-Fitzpatrick, Jens Eickhoff, Kevin W. Eliceiri, John G. White, and Nirmala Ramanujam
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19494–19499. Published online 2007 November 27. doi: 10.1073/pnas.0708425104.
PMCID: PMC2148317
NIX is required for programmed mitochondrial clearance during reticulocyte maturation
Rachel L. Schweers, Ji Zhang, Mindy S. Randall, Melanie R. Loyd, Weimin Li, Frank C. Dorsey, Mondira Kundu, Joseph T. Opferman, John L. Cleveland, Jeffery L. Miller, and Paul A. Ney
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19500–19505. Published online 2007 November 29. doi: 10.1073/pnas.0708818104.
PMCID: PMC2148318
ID genes mediate tumor reinitiation during breast cancer lung metastasis
Gaorav P. Gupta, Jonathan Perk, Swarnali Acharyya, Paola de Candia, Vivek Mittal, Katia Todorova-Manova, William L. Gerald, Edi Brogi, Robert Benezra, and Joan Massagué
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19506–19511. Published online 2007 November 28. doi: 10.1073/pnas.0709185104.
PMCID: PMC2148319
Small molecule obatoclax (GX15-070) antagonizes MCL-1 and overcomes MCL-1-mediated resistance to apoptosis
Mai Nguyen, Richard C. Marcellus, Anne Roulston, Mark Watson, Lucile Serfass, S. R. Murthy Madiraju, Daniel Goulet, Jean Viallet, Laurent Bélec, Xavier Billot, Stephane Acoca, Enrico Purisima, Adrian Wiegmans, Leonie Cluse, Ricky W. Johnstone, Pierre Beauparlant, and Gordon C. Shore
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19512–19517. Published online 2007 November 26. doi: 10.1073/pnas.0709443104.
PMCID: PMC2148320
Microbiology
Cytoskeletal “jellyfish” structure of Mycoplasma mobile
Daisuke Nakane and Makoto Miyata
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19518–19523. Published online 2007 November 27. doi: 10.1073/pnas.0704280104.
PMCID: PMC2148321
Rapid magnetosome formation shown by real-time x-ray magnetic circular dichroism
Sarah Staniland, Bruce Ward, Andrew Harrison, Gerrit van der Laan, and Neil Telling
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19524–19528. Published online 2007 November 21. doi: 10.1073/pnas.0704879104.
PMCID: PMC2148322
Substrate binding by a bacterial ABC transporter involved in polysaccharide export
Leslie Cuthbertson, Matthew S. Kimber, and Chris Whitfield
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19529–19534. Published online 2007 November 21. doi: 10.1073/pnas.0705709104.
PMCID: PMC2148323
Crystal structure of measles virus hemagglutinin provides insight into effective vaccines
Takao Hashiguchi, Mizuho Kajikawa, Nobuo Maita, Makoto Takeda, Kimiko Kuroki, Kaori Sasaki, Daisuke Kohda, Yusuke Yanagi, and Katsumi Maenaka
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19535–19540. Published online 2007 November 14. doi: 10.1073/pnas.0707830104.
PMCID: PMC2148324
Human papillomaviruses activate caspases upon epithelial differentiation to induce viral genome amplification
Cary A. Moody, Amelie Fradet-Turcotte, Jacques Archambault, and Laimonis A. Laimins
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19541–19546. Published online 2007 November 28. doi: 10.1073/pnas.0707947104.
PMCID: PMC2148325
The P2 capsid protein of the nonenveloped rice dwarf phytoreovirus induces membrane fusion in insect host cells
Feng Zhou, Yingying Pu, Taiyuan Wei, Huijun Liu, Wulan Deng, Chunhong Wei, Biao Ding, Toshihiro Omura, and Yi Li
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19547–19552. Published online 2007 November 27. doi: 10.1073/pnas.0708946104.
PMCID: PMC2148326
Neuroscience
The blinking spotlight of attention
Rufin VanRullen, Thomas Carlson, and Patrick Cavanagh
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19204–19209. Published online 2007 November 27. doi: 10.1073/pnas.0707316104.
PMCID: PMC2148268
Regulation of spine morphology and spine density by NMDA receptor signaling in vivo
Sila K. Ultanir, Ji-Eun Kim, Benjamin J. Hall, Thomas Deerinck, Mark Ellisman, and Anirvan Ghosh
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19553–19558. Published online 2007 November 28. doi: 10.1073/pnas.0704031104.
PMCID: PMC2148327
Modulation of metabolic brain networks after subthalamic gene therapy for Parkinson's disease
Andrew Feigin, Michael G. Kaplitt, Chengke Tang, Tanya Lin, Paul Mattis, Vijay Dhawan, Matthew J. During, and David Eidelberg
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19559–19564. Published online 2007 November 27. doi: 10.1073/pnas.0706006104.
PMCID: PMC2148328
Redundant and unique roles of retinol dehydrogenases in the mouse retina
Akiko Maeda, Tadao Maeda, Wenyu Sun, Houbin Zhang, Wolfgang Baehr, and Krzysztof Palczewski
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19565–19570. Published online 2007 November 28. doi: 10.1073/pnas.0707477104.
PMCID: PMC2148329
A structural basis for enhancement of long-term associative memory in single dendritic spines regulated by PKC
Jarin Hongpaisan and Daniel L. Alkon
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19571–19576. Published online 2007 December 4. doi: 10.1073/pnas.0709311104.
PMCID: PMC2148330
Specific subgroups of FruM neurons control sexually dimorphic patterns of aggression in Drosophila melanogaster
Yick-Bun Chan and Edward A. Kravitz
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19577–19582. Published online 2007 November 27. doi: 10.1073/pnas.0709803104.
PMCID: PMC2148331
A helix-breaking mutation in TRPML3 leads to constitutive activity underlying deafness in the varitint-waddler mouse
Christian Grimm, Math P. Cuajungco, Alexander F. J. van Aken, Michael Schnee, Simone Jörs, Corné J. Kros, Anthony J. Ricci, and Stefan Heller
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19583–19588. Published online 2007 November 28. doi: 10.1073/pnas.0709846104.
PMCID: PMC2148332
Pharmacology
Identification of retinoic acid as an inhibitor of transcription factor Nrf2 through activation of retinoic acid receptor alpha
Xiu Jun Wang, John D. Hayes, Colin J. Henderson, and C. Roland Wolf
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19589–19594. Published online 2007 November 28. doi: 10.1073/pnas.0709483104.
PMCID: PMC2148333
Acute-phase protein α-1-acid glycoprotein mediates neutrophil migration failure in sepsis by a nitric oxide-dependent mechanism
F. L. A. C. Mestriner, F. Spiller, H. J. Laure, F. O. Souto, B. M. Tavares-Murta, J. C. Rosa, A. Basile-Filho, S. H. Ferreira, L. J. Greene, and F. Q. Cunha
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19595–19600. Published online 2007 November 28. doi: 10.1073/pnas.0709681104.
PMCID: PMC2148334
Physiology
β cell-specific deficiency of the stimulatory G protein α-subunit Gsα leads to reduced β cell mass and insulin-deficient diabetes
Tao Xie, Min Chen, Qing-Hong Zhang, Zheng Ma, and Lee S. Weinstein
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19601–19606. Published online 2007 November 20. doi: 10.1073/pnas.0704796104.
PMCID: PMC2148335
Yeast gain-of-function mutations reveal structure–function relationships conserved among different subfamilies of transient receptor potential channels
Zhenwei Su, Xinliang Zhou, W. John Haynes, Stephen H. Loukin, Andriy Anishkin, Yoshiro Saimi, and Ching Kung
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19607–19612. Published online 2007 November 27. doi: 10.1073/pnas.0708584104.
PMCID: PMC2148336
Plant Biology
CERK1, a LysM receptor kinase, is essential for chitin elicitor signaling in Arabidopsis
Ayako Miya, Premkumar Albert, Tomonori Shinya, Yoshitake Desaki, Kazuya Ichimura, Ken Shirasu, Yoshihiro Narusaka, Naoto Kawakami, Hanae Kaku, and Naoto Shibuya
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19613–19618. Published online 2007 November 27. doi: 10.1073/pnas.0705147104.
PMCID: PMC2148337
Phloem loading in Verbascum phoeniceum L. depends on the synthesis of raffinose-family oligosaccharides
Ashlee McCaskill and Robert Turgeon
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19619–19624. Published online 2007 November 28. doi: 10.1073/pnas.0707368104.
PMCID: PMC2148338
AUREOCHROME, a photoreceptor required for photomorphogenesis in stramenopiles
Fumio Takahashi, Daisuke Yamagata, Mié Ishikawa, Yosuke Fukamatsu, Yasunobu Ogura, Masahiro Kasahara, Tomohiro Kiyosue, Munehiro Kikuyama, Masamitsu Wada, and Hironao Kataoka
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19625–19630. Published online 2007 November 14. doi: 10.1073/pnas.0707692104.
PMCID: PMC2148339
Delayed leaf senescence induces extreme drought tolerance in a flowering plant
Rosa M. Rivero, Mikiko Kojima, Amira Gepstein, Hitoshi Sakakibara, Ron Mittler, Shimon Gepstein, and Eduardo Blumwald
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19631–19636. Published online 2007 November 28. doi: 10.1073/pnas.0709453104.
PMCID: PMC2148340
Vitamin B1 biosynthesis in plants requires the essential iron–sulfur cluster protein, THIC
Maja Raschke, Lukas Bürkle, Nadine Müller, Adriano Nunes-Nesi, Alisdair R. Fernie, Duilio Arigoni, Nikolaus Amrhein, and Teresa B. Fitzpatrick
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19637–19642. Published online 2007 November 28. doi: 10.1073/pnas.0709597104.
PMCID: PMC2148341
Psychology
Task-specific change of unconscious neural priming in the cerebral language network
Kimihiro Nakamura, Stanislas Dehaene, Antoinette Jobert, Denis Le Bihan, and Sid Kouider
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19643–19648. Published online 2007 November 27. doi: 10.1073/pnas.0704487104.
PMCID: PMC2148342
From the Cover:
Attention-deficit/hyperactivity disorder is characterized by a delay in cortical maturation
P. Shaw, K. Eckstrand, W. Sharp, J. Blumenthal, J. P. Lerch, D. Greenstein, L. Clasen, A. Evans, J. Giedd, and J. L. Rapoport
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19649–19654. Published online 2007 November 16. doi: 10.1073/pnas.0707741104.
PMCID: PMC2148343
Social Sciences
Psychology
The blinking spotlight of attention
Rufin VanRullen, Thomas Carlson, and Patrick Cavanagh
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19204–19209. Published online 2007 November 27. doi: 10.1073/pnas.0707316104.
PMCID: PMC2148268
Corrections
Correction for Zhou et al., Activation of the PTEN/mTOR/STAT3 pathway in breast cancer stem-like cells is required for viability and maintenance
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19655–19656. Published online 2007 November 15. doi: 10.1073/pnas.0710050104.
PMCID: PMC2148344
Corrects: Jiangbing Zhou, et al. Activation of the PTEN/mTOR/STAT3 pathway in breast cancer stem-like cells is required for viability and maintenance. Proc Natl Acad Sci U S A. 2007 October 9; 104(41): 16158–16163.
Correction for Wittmann et al., Isolates of Zaire ebolavirus from wild apes reveal genetic lineage and recombinants
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19656. Published online 2007 November 15. doi: 10.1073/pnas.0710178104.
PMCID: PMC2148345
Corrects: Tatiana J. Wittmann, et al. Isolates of Zaire ebolavirus from wild apes reveal genetic lineage and recombinants. Proc Natl Acad Sci U S A. 2007 October 23; 104(43): 17123–17127.
Correction for Soto et al., Dissociating the neural mechanisms of memory-based guidance of visual selection
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19656. Published online 2007 November 15. doi: 10.1073/pnas.0710119104.
PMCID: PMC2148346
Corrects: David Soto, et al. Dissociating the neural mechanisms of memory-based guidance of visual selection. Proc Natl Acad Sci U S A. 2007 October 23; 104(43): 17186–17191.
Correction for Natarajan et al., The EGF receptor is required for efficient liver regeneration
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19656. Published online 2007 November 15. doi: 10.1073/pnas.0710101104.
PMCID: PMC2148347
Corrects: Anuradha Natarajan, et al. The EGF receptor is required for efficient liver regeneration. Proc Natl Acad Sci U S A. 2007 October 23; 104(43): 17081–17086.
Correction for Sanchez et al., Poverty and Hunger Special Feature: The African Millennium Villages
Proc Natl Acad Sci U S A. 2007 December 4; 104(49): 19656. Published online 2007 November 15. doi: 10.1073/pnas.0710170104.
PMCID: PMC2148348
Corrects: Pedro Sanchez, et al. Poverty And Hunger Special Feature: The African Millennium Villages. Proc Natl Acad Sci U S A. 2007 October 23; 104(43): 16775–16780.
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