PNAS — Table of Contents — April 25, 2006, 103 (17)

Agricultural Sciences

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Biological Sciences - Agricultural Sciences:
- Mayumi Sugimoto,
- Akira Fujikawa,
- James E. Womack,
- and Yoshikazu Sugimoto
Evidence that bovine forebrain embryonic zinc finger-like gene influences immune response associated with mastitis resistance
Proc Natl Acad Sci USA 2006 103:6454-6459; published ahead of print April 12, 2006, doi:10.1073/pnas.0601015103

Applied Biological Sciences

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Biological Sciences - Applied Biological Sciences:
- Yana K. Reshetnyak,
- Oleg A. Andreev,
- Ursula Lehnert,
- and Donald M. Engelman
Translocation of molecules into cells by pH-dependent insertion of a transmembrane helix
Proc Natl Acad Sci USA 2006 103:6460-6465; published ahead of print April 11, 2006, doi:10.1073/pnas.0601463103
Open Access Article

Biochemistry

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Biological Sciences - Biochemistry:
- Nader Pourmand,
- Miloslav Karhanek,
- Henrik H. J. Persson,
- Chris D. Webb,
- Thomas H. Lee,
- Alexandra Zahradníková,
- and Ronald W. Davis
Direct electrical detection of DNA synthesis
Proc Natl Acad Sci USA 2006 103:6466-6470; published ahead of print April 13, 2006, doi:10.1073/pnas.0601184103
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Biological Sciences - Biochemistry:
- Toshihiro Okada,
- Hideyuki Suzuki,
- Kei Wada,
- Hidehiko Kumagai,
- and Keiichi Fukuyama
Crystal structures of γ-glutamyltranspeptidase from Escherichia coli , a key enzyme in glutathione metabolism, and its reaction intermediate
Proc Natl Acad Sci USA 2006 103:6471-6476; published ahead of print April 17, 2006, doi:10.1073/pnas.0511020103
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Biological Sciences - Biochemistry:
- Lajos Haracska,
- Ildiko Unk,
- Louise Prakash,
- and Satya Prakash
Ubiquitylation of yeast proliferating cell nuclear antigen and its implications for translesion DNA synthesis
Proc Natl Acad Sci USA 2006 103:6477-6482; published ahead of print April 12, 2006, doi:10.1073/pnas.0510924103
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Biological Sciences - Biochemistry:
- James M. Turner,
- James Graziano,
- Glen Spraggon,
- and Peter G. Schultz
Structural plasticity of an aminoacyl-tRNA synthetase active site
Proc Natl Acad Sci USA 2006 103:6483-6488; published ahead of print April 17, 2006, doi:10.1073/pnas.0601756103
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Biological Sciences - Biochemistry:
- Anna Prudova,
- Zachary Bauman,
- Aaron Braun,
- Victor Vitvitsky,
- Shelly C. Lu,
- and Ruma Banerjee
S -adenosylmethionine stabilizes cystathionine β-synthase and modulates redox capacity
Proc Natl Acad Sci USA 2006 103:6489-6494; published ahead of print April 13, 2006, doi:10.1073/pnas.0509531103

Biophysics

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Physical Sciences - Applied Physical Sciences - Biological Sciences - Biophysics:
- Dean G. Hafeman,
- James B. Harkins, IV,
- Charles E. Witkowski, II,
- Nathan S. Lewis,
- Robert J. Warmack,
- Gilbert M. Brown,
- and Thomas Thundat
Optically directed molecular transport and 3D isoelectric positioning of amphoteric biomolecules
Proc Natl Acad Sci USA 2006 103:6436-6441; published ahead of print April 17, 2006, doi:10.1073/pnas.0509881103
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Biological Sciences - Biophysics:
- Erdal Toprak,
- Joerg Enderlein,
- Sheyum Syed,
- Sean A. McKinney,
- Rolfe G. Petschek,
- Taekjip Ha,
- Yale E. Goldman,
- and Paul R. Selvin
Defocused orientation and position imaging (DOPI) of myosin V
Proc Natl Acad Sci USA 2006 103:6495-6499; published ahead of print April 13, 2006, doi:10.1073/pnas.0507134103
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Biological Sciences - Biophysics:
- Mats H. M. Olsson
- and Arieh Warshel
Monte Carlo simulations of proton pumps: On the working principles of the biological valve that controls proton pumping in cytochrome c oxidase
Proc Natl Acad Sci USA 2006 103:6500-6505; published ahead of print April 13, 2006, doi:10.1073/pnas.0510860103
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Biological Sciences - Biophysics:
- Philip J. J. Robinson,
- Louise Fairall,
- Van A. T. Huynh,
- and Daniela Rhodes
EM measurements define the dimensions of the “30-nm” chromatin fiber: Evidence for a compact, interdigitated structure
Proc Natl Acad Sci USA 2006 103:6506-6511; published ahead of print April 14, 2006, doi:10.1073/pnas.0601212103
Open Access Article

Cell Biology

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Biological Sciences - Cell Biology:
- Sandra B. Hake
- and C. David Allis
Inaugural Article: Histone H3 variants and their potential role in indexing mammalian genomes: The “H3 barcode hypothesis”
Proc Natl Acad Sci USA 2006 103:6428-6435; published ahead of print March 29, 2006, doi:10.1073/pnas.0600803103
- See commentary article on page 6425 in issue 17 of volume 103
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Biological Sciences - Cell Biology:
- Qiang Wang,
- Xiulian Du,
- Judy Meinkoth,
- Yoshihiko Hirohashi,
- Hongtao Zhang,
- Qingdu Liu,
- Mark Richter,
- and Mark I. Greene
Characterization of Su48, a centrosome protein essential for cell division
Proc Natl Acad Sci USA 2006 103:6512-6517; published ahead of print April 14, 2006, doi:10.1073/pnas.0601682103
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Biological Sciences - Cell Biology:
- Tom P. J. Dunkley,
- Svenja Hester,
- Ian P. Shadforth,
- John Runions,
- Thilo Weimar,
- Sally L. Hanton,
- Julian L. Griffin,
- Conrad Bessant,
- Federica Brandizzi,
- Chris Hawes,
- Rod B. Watson,
- Paul Dupree,
- and Kathryn S. Lilley
Mapping the Arabidopsis organelle proteome
Proc Natl Acad Sci USA 2006 103:6518-6523; published ahead of print April 17, 2006, doi:10.1073/pnas.0506958103
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Biological Sciences - Cell Biology:
- Vladimir L. Katanaev
- and Andrew Tomlinson
Dual roles for the trimeric G protein Go in asymmetric cell division in Drosophila
Proc Natl Acad Sci USA 2006 103:6524-6529; published ahead of print April 14, 2006, doi:10.1073/pnas.0601853103
Open Access Article
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Biological Sciences - Cell Biology:
- Andrew Nguyen
- and Hua Cai
Netrin-1 induces angiogenesis via a DCC-dependent ERK1/2-eNOS feed-forward mechanism
Proc Natl Acad Sci USA 2006 103:6530-6535; published ahead of print April 12, 2006, doi:10.1073/pnas.0511011103
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Biological Sciences - Cell Biology:
- Erik L. Snapp,
- Ajay Sharma,
- Jennifer Lippincott-Schwartz,
- and Ramanujan S. Hegde
Monitoring chaperone engagement of substrates in the endoplasmic reticulum of live cells
Proc Natl Acad Sci USA 2006 103:6536-6541; published ahead of print April 14, 2006, doi:10.1073/pnas.0510657103
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Biological Sciences - Cell Biology:
- Gonzalo L. Vilas,
- Maria M. Corvi,
- Greg J. Plummer,
- Andrea M. Seime,
- Gareth R. Lambkin,
- and Luc G. Berthiaume
Posttranslational myristoylation of caspase-activated p21-activated protein kinase 2 (PAK2) potentiates late apoptotic events
Proc Natl Acad Sci USA 2006 103:6542-6547; published ahead of print April 14, 2006, doi:10.1073/pnas.0600824103

Developmental Biology

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Biological Sciences - Developmental Biology:
- Yina Li,
- Huimin Zhang,
- Ying Litingtung,
- and Chin Chiang
Cholesterol modification restricts the spread of Shh gradient in the limb bud
Proc Natl Acad Sci USA 2006 103:6548-6553; published ahead of print April 12, 2006, doi:10.1073/pnas.0600124103
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Biological Sciences - Developmental Biology:
- L. D. Covassin,
- J. A. Villefranc,
- M. C. Kacergis,
- B. M. Weinstein,
- and N. D. Lawson
Distinct genetic interactions between multiple Vegf receptors are required for development of different blood vessel types in zebrafish
Proc Natl Acad Sci USA 2006 103:6554-6559; published ahead of print April 14, 2006, doi:10.1073/pnas.0506886103
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Biological Sciences - Developmental Biology:
- Chong Pyo Choe,
- Sherry C. Miller,
- and Susan J. Brown
A pair-rule gene circuit defines segments sequentially in the short-germ insect Tribolium castaneum
Proc Natl Acad Sci USA 2006 103:6560-6564; published ahead of print April 12, 2006, doi:10.1073/pnas.0510440103

Ecology

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Physical Sciences - Environmental Sciences - Biological Sciences - Ecology:
- Anitra E. Ingalls,
- Sunita R. Shah,
- Roberta L. Hansman,
- Lihini I. Aluwihare,
- Guaciara M. Santos,
- Ellen R. M. Druffel,
- and Ann Pearson
From the Cover: Quantifying archaeal community autotrophy in the mesopelagic ocean using natural radiocarbon
Proc Natl Acad Sci USA 2006 103:6442-6447; published ahead of print April 13, 2006, doi:10.1073/pnas.0510157103
- See commentary article on page 6417 in issue 17 of volume 103
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Physical Sciences - Geology - Biological Sciences - Ecology:
- Hubert Staudigel,
- Stanley R. Hart,
- Adele Pile,
- Bradley E. Bailey,
- Edward T. Baker,
- Sandra Brooke,
- Douglas P. Connelly,
- Lisa Haucke,
- Christopher R. German,
- Ian Hudson,
- Daniel Jones,
- Anthony A. P. Koppers,
- Jasper Konter,
- Ray Lee,
- Theodore W. Pietsch,
- Bradley M. Tebo,
- Alexis S. Templeton,
- Robert Zierenberg,
- and Craig M. Young
Vailulu’u Seamount, Samoa: Life and death on an active submarine volcano
Proc Natl Acad Sci USA 2006 103:6448-6453; published ahead of print April 13, 2006, doi:10.1073/pnas.0600830103
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Biological Sciences - Ecology:
- Valeria Souza,
- Laura Espinosa-Asuar,
- Ana E. Escalante,
- Luis E. Eguiarte,
- Jack Farmer,
- Larry Forney,
- Lourdes Lloret,
- Juan M. Rodríguez-Martínez,
- Xavier Soberón,
- Rodolfo Dirzo,
- and James J. Elser
From the Cover: An endangered oasis of aquatic microbial biodiversity in the Chihuahuan desert
Proc Natl Acad Sci USA 2006 103:6565-6570; published ahead of print April 17, 2006, doi:10.1073/pnas.0601434103

Environmental Sciences

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Biological Sciences - Environmental Sciences:
- Kees-Jan van Groenigen,
- Johan Six,
- Bruce A. Hungate,
- Marie-Anne de Graaff,
- Nico van Breemen,
- and Chris van Kessel
Element interactions limit soil carbon storage
Proc Natl Acad Sci USA 2006 103:6571-6574; published ahead of print April 13, 2006, doi:10.1073/pnas.0509038103

Evolution

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Biological Sciences - Evolution:
- Marcus R. Kronforst,
- Laura G. Young,
- Durrell D. Kapan,
- Camille McNeely,
- Rachel J. O'Neill,
- and Lawrence E. Gilbert
Linkage of butterfly mate preference and wing color preference cue at the genomic location of wingless
Proc Natl Acad Sci USA 2006 103:6575-6580; published ahead of print April 12, 2006, doi:10.1073/pnas.0509685103
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Biological Sciences - Evolution:
- Karen E. Sears,
- Richard R. Behringer,
- John J. Rasweiler, IV,
- and Lee A. Niswander
Development of bat flight: Morphologic and molecular evolution of bat wing digits
Proc Natl Acad Sci USA 2006 103:6581-6586; published ahead of print April 17, 2006, doi:10.1073/pnas.0509716103
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Biological Sciences - Evolution:
- Anne Charmantier,
- Christopher Perrins,
- Robin H. McCleery,
- and Ben C. Sheldon
Quantitative genetics of age at reproduction in wild swans: Support for antagonistic pleiotropy models of senescence
Proc Natl Acad Sci USA 2006 103:6587-6592; published ahead of print April 17, 2006, doi:10.1073/pnas.0511123103
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Biological Sciences - Evolution:
- Elhanan Borenstein
- and Eytan Ruppin
Direct evolution of genetic robustness in microRNA
Proc Natl Acad Sci USA 2006 103:6593-6598; published ahead of print April 11, 2006, doi:10.1073/pnas.0510600103
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Physical Sciences - Geology - Biological Sciences - Evolution:
- James W. Valentine,
- David Jablonski,
- Susan Kidwell,
- and Kaustuv Roy
Assessing the fidelity of the fossil record by using marine bivalves
Proc Natl Acad Sci USA 2006 103:6599-6604; published ahead of print April 14, 2006, doi:10.1073/pnas.0601264103

Genetics

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Biological Sciences - Genetics:
- Isidore Rigoutsos,
- Tien Huynh,
- Kevin Miranda,
- Aristotelis Tsirigos,
- Alice McHardy,
- and Daniel Platt
Short blocks from the noncoding parts of the human genome have instances within nearly all known genes and relate to biological processes
Proc Natl Acad Sci USA 2006 103:6605-6610; published ahead of print April 24, 2006, doi:10.1073/pnas.0601688103
Open Access Article
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Biological Sciences - Genetics:
- Maria del Carmen Seleme,
- Melissa R. Vetter,
- Richard Cordaux,
- Laurel Bastone,
- Mark A. Batzer,
- and Haig H. Kazazian, Jr.
Extensive individual variation in L1 retrotransposition capability contributes to human genetic diversity
Proc Natl Acad Sci USA 2006 103:6611-6616; published ahead of print April 17, 2006, doi:10.1073/pnas.0601324103
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Biological Sciences - Genetics:
- Jeremy W. Rupon,
- Shou Zhen Wang,
- Karin Gaensler,
- Joyce Lloyd,
- and Gordon D. Ginder

Table of Contents

FROM THE COVER

In This Issue

Trembley’s polyps go transgenic

Archaeal mysteries of the deep revealed

Designing a nano-interface in a microfluidic chip to probe living cells: Challenges and perspectives

Profile of C. David Allis

Optically directed molecular transport and 3D isoelectric positioning of amphoteric biomolecules

From the Cover: Quantifying archaeal community autotrophy in the mesopelagic ocean using natural radiocarbon

Vailulu’u Seamount, Samoa: Life and death on an active submarine volcano

Assessing the fidelity of the fossil record by using marine bivalves

Evidence that bovine forebrain embryonic zinc finger-like gene influences immune response associated with mastitis resistance

Translocation of molecules into cells by pH-dependent insertion of a transmembrane helix

Direct electrical detection of DNA synthesis

Crystal structures of γ-glutamyltranspeptidase from Escherichia coli , a key enzyme in glutathione metabolism, and its reaction intermediate

Ubiquitylation of yeast proliferating cell nuclear antigen and its implications for translesion DNA synthesis

Structural plasticity of an aminoacyl-tRNA synthetase active site

S -adenosylmethionine stabilizes cystathionine β-synthase and modulates redox capacity

Optically directed molecular transport and 3D isoelectric positioning of amphoteric biomolecules

Defocused orientation and position imaging (DOPI) of myosin V

Monte Carlo simulations of proton pumps: On the working principles of the biological valve that controls proton pumping in cytochrome c oxidase

EM measurements define the dimensions of the “30-nm” chromatin fiber: Evidence for a compact, interdigitated structure

Inaugural Article: Histone H3 variants and their potential role in indexing mammalian genomes: The “H3 barcode hypothesis”

Characterization of Su48, a centrosome protein essential for cell division

Mapping the Arabidopsis organelle proteome

Dual roles for the trimeric G protein Go in asymmetric cell division in Drosophila

Netrin-1 induces angiogenesis via a DCC-dependent ERK1/2-eNOS feed-forward mechanism

Monitoring chaperone engagement of substrates in the endoplasmic reticulum of live cells

Posttranslational myristoylation of caspase-activated p21-activated protein kinase 2 (PAK2) potentiates late apoptotic events

Cholesterol modification restricts the spread of Shh gradient in the limb bud

Distinct genetic interactions between multiple Vegf receptors are required for development of different blood vessel types in zebrafish

A pair-rule gene circuit defines segments sequentially in the short-germ insect Tribolium castaneum

From the Cover: Quantifying archaeal community autotrophy in the mesopelagic ocean using natural radiocarbon

Vailulu’u Seamount, Samoa: Life and death on an active submarine volcano

From the Cover: An endangered oasis of aquatic microbial biodiversity in the Chihuahuan desert

Element interactions limit soil carbon storage

Linkage of butterfly mate preference and wing color preference cue at the genomic location of wingless

Development of bat flight: Morphologic and molecular evolution of bat wing digits

Quantitative genetics of age at reproduction in wild swans: Support for antagonistic pleiotropy models of senescence

Direct evolution of genetic robustness in microRNA

Assessing the fidelity of the fossil record by using marine bivalves

Short blocks from the noncoding parts of the human genome have instances within nearly all known genes and relate to biological processes

Extensive individual variation in L1 retrotransposition capability contributes to human genetic diversity