MBL Catalyst Magazine, Summer 2013

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cat.7.13 MBL Catalyst, Volume 8, Number 1, Summer 2013
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SUPPLEMENTAL INFORMATION

References

Pp. 2-3 “The MBL’s 125th Anniversary”

MBL Timeline: Historical information from MBL Annual Reports courtesy of Diane Rielinger, co-director, MBLWHOI Library

Joan V. Ruderman background (selected publications)

Rosenthal ET, Hunt T, and Ruderman JV (1980) Selective translation of mRNA controls the pattern of protein synthesis during early development of the surf clam Spisula solidissima. Cell 20: 487-494.
Rosenthal ET, Tansey TR, and Ruderman JV (1983) Sequence-specific adenylations and deadenylations accompany changes in the translation of maternal messenger RNA after fertilization of Spisula oocytes. J. Mol. Biol. 166: 309-327.
Swenson K, Farrell KM, and Ruderman JV (1986) The clam embryo protein cyclin A induces entry into M-phase and the resumption of meiosis in Xenopus oocytes. Cell 47: 861-870.
Draetta G et al (1989) cdc2 protein kinase is complexed with both cyclin A and B: Evidence for proteolytic inactivation of MPF. Cell 56: 829-838.
Luca FC, and Ruderman JV (1989) Control of programmed cyclin destruction in a cell-free system. J. Cell Biol. 109: 1895-1909.
Motokura T et al (1991) A novel cyclin encoded by a bcl1-linked oncogene. Nature 350: 512-515.
Hershko A et al (1994) Components of a system that ligates cyclin to ubiquitin and their regulation by the protein kinase cdc2. J. Biol. Chem. 269: 4940-4946.
Sudakin V et al (1995) The cyclosome, a large complex containing cyclin-selective ubiquitin ligase activity, targets cyclins for destruction at the end of mitosis. Mol. Biol. Cell 6: 185-198.
Chung E, Genco M, Megrelis L, and Ruderman JV (2011) Effects of bisphenol A and triclocarbon on brain-specific expression of aromatase in early zebrafish embryos. PNAS 108: 17732-7.


Pp. 4-5 “Traveling on a Woods Hole Passport”

MBL Physiology course
Dyche Mullins laboratory


Pp. 6-7 “News & Notes”

MBL’s Jerry Melillo Leads National Climate Assessment
US Global Change Research Program: National Climate Assessment

Collaboration Yields Insight Into Lou Gehrig’s Disease
Song YY, et al (2013) Molecular chaperone Hsp110 rescues a vesicle transport defect produced by an ALS-associated mutant SOD1 protein in squid axoplasm. PNAS 110: 5428-33.

Microbial Diversity Course Designated “Milestones in Microbiology” Site
MBL Microbial Diversity course
Press release on “Milestones in Microbiology” Award

Getting A Bite: Fish Study Probes Evolution of the Vertebrate Jaw
Gillis JA, Modrell MS, and Baker CVH (2013) Developmental evidence for serial homology of the vertebrate jaw and gill arch skeleton. Nature Comm. 4:1436.

Embryology Course Turns 120
MBL Embryology course
120th Anniversary Symposium

Pp. 8-9 “A Collaboration Called the MBL”

Whitman, Charles Otis. “Specialization and Organization, Companion Principles of All Progress—The Most Important Need in American Biology,” from Biological Lectures Delivered at the Marine Biological Laboratory of Woods Holl, in the Summer Session of 1890 (Boston: Ginn & Company, 1891), p. 24.
Rodolfo Llinas laboratory
Jennifer Morgan laboratory
Ona Bloom laboratory
Joseph Buxbaum laboratory
Julie Huber laboratory
MBL Micro-Eco Discussion Group
Zoe Cardon laboratory
Anne Giblin laboratory
Stefan Sievert laboratory

Pp. 10-11 “Inspired to a Life in Science”

Jonathan Gitlin laboratory

Mendelsohn BA et al (2006) Atp7a determines a hierarchy of copper metabolism essential for notochord development. Cell Metabolism 4:155-162.
Mendelsohn BA, Kassebaum BL, Gitlin JD (2008) The zebrafish embryo as a dynamic model of anoxia tolerance. Dev Dyn 237:1780-1788.
Thiele DJ, Gitlin JD (2008) Transition metal metabolism: Assembling the pieces. Nature Chem Biol 4:145-147.
Loeb, Jacques (1895) Untersuchungen iiber die physiologischen Wirkungen des Sauerstoffmangels. Pfliiger’s Arch. 62: 249-295.

Roger Hanlon laboratory

Keith Porter on iridophores: Rohrlich ST and Porter KR (1972) Fine structural observations relating to the production of color by the iridophores of a lizard, Anolis carolinensis. J Cell Biology 53: 38-52
1990 Hanlon paper that was much influenced by Porter:
Cooper KM, Hanlon RT, and Budelmann, BU (1990) Physiological color change in squid iridophores. II. Ultrastructural mechanisms in Lolliguncula brevis. Cell and Tissue Research, 259, 15-24.
A recent Hanlon lab paper from this line of research: Wardill TJ et al (2012) Neural control of tuneable skin iridescence in squid. Proc. Royal Soc. B 279: 4243-4252.
Information on Keith Porter:
Inoué, Shinya, and Goldman, Robert. “Keith Porter and the Fine Architecture of Living Cells,” in The Biological Century: Friday Evening Talks at the Marine Biological Laboratory, Eds. RB Barlow, JE Dowling and G Weissmann (Woods Hole, Mass.: The Marine Biological Laboratory, 1993).

Rhonda Dzakpasu laboratory

Niedringhaus M, Chen X, Conant K, Dzakpasu R (2013) Synaptic potentiation facilitates memory-like attractor dynamics in cultured in vitro hippocampal networks. PLoS One, 8: e57144.
Gonzalez-Sulser A et al (2012) Hippocampal neuron firing and local field potentials in the in vitro 4-aminopyridine epilepsy model. J. Neurophysiol. 108: 2568-2580.
Edwin McCleskey, Howard Hughes Medical Institute
MBL Neurobiology course
MBL Summer Program in Neuroscience, Ethics, and Survival

Tomomi Tani laboratory

Inoué S, Shimomura O, Goda M, Shribak M and Tran PT (2002) Fluorescence polarization of green fluorescence protein. Proc Natl Acad Sci 99: 4272–4277.
MBL Optical Microscopy and Imaging in the Biomedical Sciences course


Pp. 12-13 “The Evolution of Immense Diversity”

Mitchell Sogin laboratory
International Census of Marine Microbes
Human Microbiome Project
Deep Carbon Observatory/Deep Life Directorate

Background: Pace NR, Sapp J, and Goldenfeld N (2012) Phylogeny and beyond: Scientific, historical, and conceptual significance of the first tree of life. PNAS 109: 1011-1018.

Selected papers:
Sogin ML, Elwood HJ and Gunderson JH (1986) Evolutionary diversity of eukaryotic small-subunit rRNA genes. PNAS 83: 1383–1387.
Edman JC et al (1988) Ribosomal RNA sequence shows Pneumocystis carinii to be a member of the fungi. Nature 334:519-22.
Sogin ML et al (1989) Phylogenetic meaning of the kingdom concept: an unusual ribosomal RNA from Giardia lamblia. Science 243:75-7.
Wainright PO et al (1993) The monophyletic origins of the Metazoa: An unexpected evolutionary link with Fungi. Science 260: 340-243.
Bahr M, Hobbie JE, Sogin ML (1996) Bacterial diversity in an arctic lake: a freshwater SAR11 cluster. Aquatic Microbial Ecology 11: 271-277.
Teske A et al (2002) Microbial diversity of hydrothermal sediments in the Guaymas Basin: evidence for anaerobic methanotrophic communities. Appl. and Environ. Microbiol. 68: 1994-2007.
Amaral Zettler LA et al (2002) Heavy metal, acid loving eukaryotes from Spain’s “River of Fire.” Nature 417:137.
Edgcomb VP et al (2002). Benthic eukaryotic diversity in a hydrothermal vent. PNAS 99:7658-7662.
Sogin ML et al (2006) Microbial diversity in the deep sea and the under-explored “rare biosphere.” PNAS 103: 12115-12120.
Huber JA et al (2007) Microbial population structures in the deep marine biosphere. Science 318: 97-100.
Santelli et al (2008) Abundance and diversity of microbial life in the ocean crust. Nature 453: 653-656.
Dethlefsen L et al (2008) The pervasive effects of an antibiotic on the human gut microbiota as revealed by deep 16S rRNA sequencing. PLoS Biol 6: e280.
Turnbaugh PJ et al (2008) A core gut microbiome in obese and lean twins. Nature 457: 480-484.
Brazelton WJ et al (2010) Archaea and bacteria with surprising microdiversity show shifts in dominance over 1000-year time scales in hydrothermal chimneys. PNAS 107: 1612-1617.
Shanks OC et al (2013) Comparison of microbial community structure in untreated wastewater from different geographic locales. Appl. Env. Microbiol. 79: 2906-13.
Young VB et al (2013) Multiphasic analysis of the temporal development of the distal gut microbiota in patients following ileal pouch anal anastomosis. Microbiome 1: 9.


P. 15 “Making History at the MBL”

History of the Marine Biological Laboratory site


P. 16 “Predicting the Future of a Much-Changed World”

Christopher Neill
Ellis EC (2011) Anthropogenic transformation of the terrestrial biosphere. Proc. Royal Soc. A 369: 1010-1035.
Ellis EC and Ramankutty N (2008) Putting people in the map: anthropogenic biomes of the world. Frontiers Ecol. Environ. 6: 439-447.
Solomon S, Qin D, Manning M, Chen Z, Marquis M, Avery KB, Tignor M, and Miller HL, eds. Contribution of Working Group I to the Fourth Assessment Report of the Intergovernmental Panel on Climate Change (Cambridge and New York: Cambridge University Press, 2007).
A plot of atmospheric CO2 concentration in the global atmosphere for the last 2,000 years can be found at Frequently Asked Question 2.1, ” How Do Human Activities Contribute to Climate Change and How do They Compare with Natural Influences”
A plot showing that current atmospheric CO2 is outside the range for the last 600,000 years can be found here.
Woodwell GM, Hobbie JE, Houghton RA, Melillo JM, Moore B, Peterson BJ and Shaver GS (1983) Global deforestation: Contribution to atmospheric carbon dioxide. Science N.S. 222: 1081-1086.


P. 17 “Seal of the Sea”

Lillie Building construction documents provided by Robert J. Roche, Archives & Record Management, Shepley Bulfinch, Boston, Mass. Research conducted by Matthew Person, MBLWHOI Library.

Photo Captions

Cover: MBL Microbial Diversity course students conduct fieldwork at Little Sippewissett in Falmouth, Mass., one of the best studied salt marshes in the world (Daniel Buckley); inset, child on Woods Hole beach, 1921 (Alfred Francis Huettner). Inside cover: Microbial Diversity course students at Little Sippewissett Marsh, Falmouth, Mass. (Daniel Buckley); Joan Ruderman (Joel Bissell/Cape Cod Times). P.1: Aerial of Woods Hole village (Woods Hole Oceanographic Institution); Shinya Inoué (MBL); MBL visiting scientists Len Kaczmarek and Elizabeth Jonas (Tom Kleindinst). Pp. 2-3: top, Lillie pediment (Elizabeth Armstrong); Embryology course students (Tom Kleindinst); MBL Timeline, left to right: Gertrude Stein in 1897 MBL course (MBL Archives); 1974 Embryology course with Joan Ruderman in front row, second from right (MBL Archives); 1998 Semester in Environmental Science students (Toby Ahrens); Brown-MBL Graduate Program student Yuko Hasegawa (Tom Kleindinst). Pp. 4-5: Dyche Mullins in the library of the Stazione Zoologica (Dyche Mullins); Katsuma Dan’s Misaki marine station note (MBL Archives). Pp. 6-7: clockwise from left, Harvard Forest experimental soil-warming plot (Jerry Melillo); American Society for Microbiology plaque to Microbial Diversity course (Merry Buckley, artist); embryo of the dwarf cuttlefish, Sepia bandensis, stained with phalloidin (F-actin; green), DAPI (nuclei, blue), and anti Pax 3/7 (MAb DP312, red). The developing cuttlebone (purple) and eyes (yellow) were rendered using the DIC image collected during the confocal scan. The F-actin staining (green) reveals the developing musculature and brain, while Pax 3/7 (red) is expressed in a subset of neurons in the brain as well as two patches of epithelia in the mantle and portions of the arms and tentacles. The cuttlebone (purple) is a chambered, gas-filled internal shell made of aragonite that provides buoyancy control. Within each eye (yellow), the developing lens is seen as an internal sphere. Photo taken in 2012 Embryology course (Maggie Rigney and Nipam Patel; courtesy of The Node); embryonic shark showing skeleton of the jaw and gill arches (Andrew Gillis); squid (Roger Hanlon). Pp. 8-9: clockwise from top, Woods Hole with Eel Pond at right (Tom Kleindinst); MBL Founding Director Charles Otis Whitman (MBL Archives); Zoe Cardon of MBL, Stefan Sievert of WHOI, and Anne Giblin of MBL (Tom Kleindinst); MBL visiting scientists Rodolfo Llinás and Mutsuyuki Sugimori (Tom Kleindinst); Pp. 10-11, from left: Jonathan Gitlin (Tom Kleindinst); Jacques Loeb (MBL Archives); clockwise from top left, Roger Hanlon (Tom Kleindinst); Rhonda Dzakpasu (courtesy Rhonda Dzakpasu); Tomomi Tani (Tom Kleindinst); Shinya Inoué (MBL); Osamu Shimomura (Tom Kleindinst); Ed McCleskey (Lubert Stryer); Keith Porter (A. Maher); Pp. 12-13: Mitchell Sogin (Tom Kleindinst); background, 3D graphical representation of compositional similarities and differences between microbial communities in the Earth’s deep subsurface (Mitchell Sogin); P. 14: Plum Island Estuary in northern Massachusetts (Christian Picard); expressed neuron (MBL Cellular Dynamics Program); MBL Summer Course students (Tom Kleindinst). P. 15: Thomas Hunt Morgan’s 1933 Nobel Prize diploma (Diana Kenney); T.H. Morgan’s grandchildren in Woods Hole, 1937 (MBL Archives). P. 16: Christopher Neill (Tom Kleindinst). P. 17: Lillie pediment casting (Shepley Bulfinch Archives). Back cover: University of Chicago campus (University of Chicago).