Howe Lab - Publications
This lists publications from members of the group in refereed journals over the last ten years. Some of the more useful contributions to books, conference proceedings and so on are also included, together with a selection of more significant papers that are more than ten years old. This list does not include publications by individual group members on research themes other than those undertaken in the Howe lab or with regular collaborators. For a complete list of publications for individual group members, please see their respective pages. Links where included are generally to the paper abstract located on the US NCBI PubMed database, although some are to individual journal pages. If you wish to obtain a copy of a paper that is not available online, please contact Professor Howe.
Do Red and Green Make Brown? Perspectives on Plastid Acquisitions within the Chromalveolates; Dorrell, R.G. & Smith, A.G. (2011) Eukaryotic Cell, in press
Eukaryotic systematics: a user's guide for cell biologists and parasitologists; Walker, G., Dorrell, R.G., Schlacht, A., Dacks, J.B. (2011) Parasitology, in press
Evolution of the TSC1/TSC2-TOR signaling pathway. Serfontein J, Nisbet RER, Howe CJ & de Vries PJ (2010) Science Signaling 3: ra49.
Molecular Basis of the Waxy Endosperm Starch Phenotype in Broomcorn Millet (Panicum miliaceum L.). Hunt HV, Denyer K, Packman LC, Jones MK & Howe CJ (2010) Molecular Biology and Evolution 27: 1478-1494.
Biodiesel from algae: challenges and prospects. Scott SA, Davey MP, Dennis JS, Horst I, Howe CJ, Lea-Smith DJ & Smith AG. (2010) Current Opinion in Biotechnology 21: 277-286.
A banned variety was the mother of several major wine grapes. Hunt HV, Lawes MC, Bower MA, Haeger JW & Howe CJ. (2010) Biology Letters 6: 367-369.
A flock of sheep, goats and cattle: ancient DNA analysis reveals complexities of historical parchment manufacture. Campana MG, Bower MA, Bailey MJ, Stock F, O'Connell TC, Edwards CJ, Checkley-Scott C, Knight B, Spencer M & Howe CJ. (2010) Journal of Archaeological Science 37: 1317-1325.
The potential for extraction and exploitation of DNA from parchment: a review of the opportunities and hurdles. Bower MA, Campana MG, Checkley-Scott C, Knight B & Howe CJ. (2010) Journal of the Institute of Conservation 33: 1-11.
Organisation and expression of organelle genomes. Barbrook AC, Howe CJ, Kurniawan DP & Tarr SJ. (2010) Philosophical Transactions of the Royal Society B 365: 85-797.
Influence of nitrogen-limitation regime on the production by Chlorella vulgaris of lipids for biodiesel feedstocks. Stephenson AL, Dennis JS, Howe CJ, Scott SA & Smith AG. (2010) Biofuels, 1: 47-58.
Latitudinal variation in a photoperiod response gene in European barley: insight into the dynamics of agricultural spread from 'historic' specimens. Lister DL, Thaw S, Bower MA, Jones H, Charles MP, Jones G, Smith LMJ, Howe CJ, Brown TA & Jones MK. (2009) Journal of Archaeological Science 36: 1092-1098.
Emission of methane from plants. Nisbet RER, Fisher R, Nimmo RH, Bendall DS, Crill PM, Gallego-Sala AV, Hornibrook ERC, Lopez-Juez E, Lowry D, Nisbet PBR, Shuckburgh EF, Sriskantharajah S, Howe CJ & Nisbet EG. (2009) Proceedings of the Royal Society 276: 1347-1354.
Dante's Monarchia as a test case for the use of phylogenetic methods in stemmatic analysis. Windram H, Shaw P, Robinson P & Howe CJ. (2008) Literary and Linguistic Computing 23: 443-463.
Cytochrome c6A: discovery, structure and properties responsible for its low haem redox potential. Worrall JAR, Luisi BF, Schlarb-Ridley BG, Bendall DS & Howe CJ. (2008) Biochemical Society Transactions 36: 1175-1179
Docking of cytochrome c6 and plastocyanin to the aa3-type cytochrome c oxidase in the cyanobacterium Phormidium laminosum. Hart SE, Howe CJ, Mizuguchi K & Fernandez-Recio J. (2008) Protein Engineering, Design and Selection 21: 689-698.
Dinoflagellates: a mitochondrial genome all at sea. Nash EA, Nisbet RER, Barbrook AC & Howe CJ. (2008) Invited review, Trends in Genetics 24:328-336.
Introduction: Photosynthetic and atmospheric evolution. Bendall DS, Howe CJ, Nisbet EG & Nisbet RER. (2008) Philosophical Transactions of the Royal Society, Biological Sciences 363: 2625-2628.
The origin of plastids. Howe CJ, Barbrook AC, Nisbet RER, Lockhart PJ & Larkum AWD. (2008) Philosophical Transactions of the Royal Society, Biological Sciences 363: 2675-2685.
Cellular evolution: What's in a mitochondrion? Howe CJ. (2008) Current Biology 18: R429-31.
The remarkable chloroplast genome of dinoflagellates. Howe CJ, Nisbet RER & Barbrook AC. (2008) Invited review, Journal of Experimental Botany 59: 1035-45.
Transcript analysis of dinoflagellate plastid gene minicircles. Nisbet RER, Hiller RG, Barbrook AC, Skene P, Barry ER & Howe CJ. (2007) Protist 159 31-9.
The age of RubisCO: the evolution of oxygenic photosynthesis. Nisbet EG, Grassineau N, Howe CJ, Abell PI, Regelous M & Nisbet RER. (2007) Geobiology 5 311-35.
The tuberous sclerosis complex proteins - a GRIPP on cognition and neurodevelopment. de Vries PJ & Howe CJ. (2007) Trends in Molecular Medicine 13 319-326.
Modulation of heme redox potential in the cytochrome c6 family. Worrall JA, Schlarb-Ridley BG, Reda T, Marcaida MJ, Moorlen RJ, Wastl J, Hirst J, Bendall DS, Luisi BF & Howe CJ. (2007) Journal of the American Chemical Society 129 9468-75.
Organization of the mitochondrial genome in the dinoflagellate Amphidinium carterae. Nash EA, Barbrook AC, Edwards-Stuart RK, Bernhardt K, Howe CJ & Nisbet RER. (2007) Molecular Biology and Evolution 24 1528-1536
Shopping for plastids. Larkum AW, Lockhart PJ & Howe CJ. (2007) Trends in Plant Sciences 12 189-95
The little genome of apicomplexan plastids: its raison d'être and a possible explanation for the ‘delayed death’ phenomenon. Howe CJ & Purton S. (2007) Protist 158 121-133
The copy number of chloroplast gene minicircles changes dramatically with growth phase in the dinoflagellate Amphidinium operculatum. Koumandou VL & Howe CJ. (2007) Protist 158 89-103
Comparative analysis of dinoflagellate chloroplast genomes reveals rRNA and tRNA genes. Barbrook AC, Santucci N, Plenderleith LJ, Hiller RG & Howe CJ (2006) BMC Genomics 7 297
Structure of cytochrome c6A, a novel dithio-cytochrome of Arabidopsis thaliana, and its reactivity with plastocyanin: implications for function. Marcaida MJ, Schlarb-Ridley BG, Worrall JA, Wastl J, Evans TJ, Bendall DS, Luisi BF & Howe CJ (2006) Journal of Molecular Biology 360 968-977
Phylogenetic analysis of written traditions. Spencer M, Windram H, Barbrook AC, Davidson EA & Howe CJ (2006) In: Phylogenetic methods and the prehistory of languages. (ed.) Forster, P. Ch. 6, pp 67-74. McDonald Institute of Archaeological Research, Cambridge.
Cytochrome c6A is a funnel for thiol oxidation in the thylakoid lumen. Schlarb-Ridley BG, Nimmo RH, Purton S, Howe CJ & Bendall DS. (2006) FEBS Letters 580 2166-2169
Molecular diversity of dinoflagellate symbionts of Cnidaria: the psbA minicircle of Symbiodinium. Barbrook AC, Visram S, Douglas AE & Howe CJ (2006) Protist 157 159-171
Distinctive organization of genes for light-harvesting proteins in the cryptophyte alga Rhodomonas. Broughton MJ, Howe CJ & Hiller RG (2006) Gene 369 72-79
Why are plastid genomes retained in non-photosynthetic organisms? Barbrook AC, Howe CJ & Purton S (2006) Trends in Plant Sciences 11 101-108
The novel cytochrome c6 of chloroplasts: a case of evolutionary bricolage? Howe CJ, Schlarb-Ridley BG, Wastl J, Purton S & Bendall DS (2005) Journal of Experimental Botany 57 12-22
Anomalous chloroplast genome organisation in dinoflagellates. Barbrook A, Nisbet E, Koumandou L and Howe CJ. (2005) In: Photosynthesis: fundamental aspects to global perspectives. (eds.) van der Est, A and Bruce, D. 763-765. Proceedings of the 13th International Congress of Photosynthesis.
Terminal oxidases of cyanobacteria. Hart SE, Schlarb-Ridley BG, Bendall DS & Howe CJ (2005) Biochemical Society Transactions 33 832-835
How many clones need to be sequenced from a single forensic or ancient DNA sample in order to determine a reliable consensus sequence? Bower MA, Spencer M, Matsumura S, Nisbet RER & Howe CJ (2005) Nucleic Acids Research 33 2549-2556
The identification of exemplar change in the Wife of Bath's Prologue using the maximum χ-squared method. Windram HF, Howe CJ & Spencer M (2005) Literary and Linguistic Computing 20 189-204
Implications of the effects of viscosity, macromolecular crowding, and temperature for the transient interaction between cytochrome f and plastocyanin from the cyanobacterium Phormdium laminosum. Schlarb-Ridley BG, Mi H, Teale WD, Meyer VS, Howe CJ & Bendall DS (2005) Biochemistry 44 6232-6238
Unique origin and lateral transfer of prokaryotic chlorophyll-b and chlorophyll d-light-harvesting systems. Chen M, Hiller RG, Howe CJ & Larkum AWD (2005) Molecular Biology & Evolution 22 21-28
The unfinished story of cytochrome f. Bendall DS (2004) Photosynthesis Research 80 265-276
Collating texts using progressive multiple alignment. Spencer M & Howe CJ (2004) Computers and the Humanities 38 253-270
Two forms of cytochrome c6 in a single eukaryote. Wastl J, Purton S, Bendall DS & Howe CJ (2004) Trends in Plant Sciences 9 474-476
Authenticity of ancient DNA results: a statistical approach. Spencer M & Howe CJ (2004) American Journal of Human Genetics 75 240-250
Redox properties of Arabidopsis cytochrome c6 are independent of the loop extension specific to higher plants. Wastl J, Molina-Heredia FP, Hervas M, Navarro JA, De La Rosa MA, Bendall DS & Howe CJ (2004) Biochimica Biophysica Acta 1657 115-120
Dinoflagellate chloroplasts - where have all the genes gone? Koumandou VL, Nisbet RER, Barbrook AC & Howe CJ (2004) Trends in Genetics 20 261-267
Novel plastid gene minicircles in the dinoflagellate Amphidinium operculatum. Nisbet RER, Koumandou VL, Barbrook AC & Howe CJ (2004) Gene 331 141-147
Phylogenetics of artificial manuscripts. Spencer M, Davidson EA, Barbrook AC & Howe CJ (2004) Journal of Theoretical Biology 227 503-511
Representing multiple pathways of textual flow in the Greek manuscripts of the Letter of James using reduced median networks. Spencer M, Wachtel K & Howe CJ (2004) Computers and the Humanities 38 1-14
How reliable is a stemma? An analysis of Chaucer's Miller's Tale. Spencer M, Bordalejo B, Robinson P & Howe CJ (2003) Literary and Linguistic Computing 18 407-422
Exact significance levels for the maximum χ-squared method for detecting recombination. Spencer M (2003) Bioinformatics 19 1368-1370
DNA transfer from chloroplast to nucleus is much rarer in Chlamydomonas than in tobacco. Lister DL, Bateman JM, Purton S & Howe CJ (2003) Gene 316 33-38
Stemmatic analysis of Lydgate's Kings of England: a test case for the application of software developed for evolutionary biology to manuscript stemmatics. Mooney LR, Barbrook AC, Howe CJ & Spencer M (2001) Revue d'Histoire des Textes 31 275-297 (published 2003)
A new function for an old cytochrome. Molina-Heredia FP, Wastl J, Navarro JA, Bendall DS, Hervas M, Howe CJ & De La Rosa MA (2003) Nature 424 33-34
Role of charges on cytochrome f from the cyanobacterium Phormidium laminosum in its interaction with plastocyanin. Hart SE, Schlarb-Ridley BG, Delon C, Bendall DS & Howe CJ (2003) Biochemistry 42 4829-4836
Relation between interface properties and kinetics of electron transfer in the interaction of cytochrome f and plastocyanin from plants and the cyanobacterium Phormidium laminosum. Schlarb-Ridley BG, Bendall DS & Howe CJ (2003) Biochemistry 42 4057-4063
Evolution of the chloroplast genome. Howe CJ, Barbrook AC, Koumandou VL, Nisbet RER, Symington H & Wightman TF (2003) Philosophical Transactions of the Royal Society B 358 99-107
Analyzing the order of items in manuscripts of the Canterbury Tales. Spencer M, Bordalejo B, Wang L-S, Barbrook AC, Mooney LR, Robinson P, Warnow T & Howe CJ (2003) Computers and the Humanities 37 97-109
How accurate were scribes? A mathematical model. Spencer M & Howe CJ (2002) Literary and Linguistic Computing 17 311-322
The Greek Vorlage of the Syra Harclensis: a comparative study on method in exploring textual genealogy. Spencer M, Wachtel K & Howe CJ (2002) http://purl.org/TC/vol07/SWH2002/
The role of electrostatics in the interaction between plastocyanin and photosystem I of the cyanobacterium Phormidium laminosum. Schlarb-Ridley BG, Navarro JA, Bendall DS, Hervas M, Howe CJ & De La Rosa MA (2002) European Journal of Biochemistry 269 5893-5902
Novel cyanobacterial biosensor for detection of herbicides. Shao CY, Howe CJ, Porter AJR & Glover LA (2002) Applied Environmental Microbiology 68 5026-5033
A novel [Fe] hydrogenase from the anaerobic hydrogenosome-containing fungus Neocallimastix frontalis L2. Davidson EA, van der Giezen M, Horner DS, Embley TM & Howe CJ (2002) Gene 296 45-52
Higher plants contain a modified cytochrome c6. Wastl J, Bendall DS & Howe CJ (2002) Trends in Plant Sciences 7 244-245
The role of electrostatics in the interaction between cytochrome f and plastocyanin of the cyanobacterium Phormidium laminosum. Schlarb-Ridley BG, Bendall DS & Howe CJ (2002) Biochemistry 41 3279-3285
Hydrophobic interactions in a cyanobacterial plastocyanin-cytochrome f complex. Crowley PB, Otting G, Schlarb-Ridley BG, Canters GW & Ubbink M (2001) Journal of the American Chemical Society 123 10444-10453
Chloroplast and mitochondrial type I signal peptidases. Howe CJ & Floyd KA (2001) in The Enzymes vol XXII pp 101-125, ed. Dalbey R., Academic Press. Buy it from Sigma UK
Estimating distances between manuscripts based on copying errors. Spencer M & Howe CJ (2001) Literary and Linguistic Computing 16 467-484
Organization and expression of the plastid genome of the dinoflagellate Amphidinium operculatum. Barbrook AC, Symington H, Nisbet RER, Larkum A & Howe CJ (2001) Molecular Genetics and Genomics 266 632-638
Manuscript evolution. Howe CJ, Barbrook AC, Spencer M, Robinson P, Bordalejo B & Mooney LR (2001) Trends in Genetics 17 147-152. Reprinted (2001) in Endeavour 25 121-126
The role of individual lysine residues in the basic patch on turnip cytochrome f for electrostatic interactions with plastocyanin in vitro. Gong X-S, Wen JQ, Fisher NE, Young S, Howe CJ, Bendall DS & Gray JC (2000) European Journal of Biochemistry 267 3461-3468
Tryptophan-heme π-electrostatic interactions in cytochrome f of oxygenic photosynthesis. Ponamarev MV, Schlarb BG, Howe CJ, Carrell CJ, Smith JL, Bendall DS & Cramer WA (2000) Biochemistry 39 5971-5976
How molecules evolve on the eubacterial tree of life. Lockhart PJ, Huson D, Maier U, Fraunholz MJ, van de Peer Y, Barbrook AC, Howe CJ & Steel MA (2000) Molecular Biology & Evolution 17 835-838
Minicircular plastid DNA in the dinoflagellate Amphidinium operculatum. Barbrook AC & Howe CJ (2000) Molecular & General Genetics 263 152-158
Organelle genes - do they jump or are they pushed? Howe CJ, Barbrook AC & Lockhart PJ (2000) Trends in Genetics 16 65-66
Phylogenetic analysis of plastid origins based on secA sequences. Barbrook AC, Lockhart PJ & Howe CJ (1998) Current Genetics 34 336-341
The phylogeny of the Canterbury Tales. Barbrook AC, Howe CJ, Blake N & Robinson P (1998) Nature 394 839
A covariotide model explains apparent phylogenetic structure of oxygenic photosynthesic lineages. Lockhart PJ, Steel MA, Barbrook AC, Huson D, Charleston MA & Howe CJ (1998) Molecular Biology & Evolution 15 1183-1188
Characterization of a cDNA encoding the thylakoidal processing peptidase from Arabidopsis thaliana - implications for the origin and catalytic mechanism of the enzyme. Chaal BK, Mould RM, Barbrook AC, Gray JC and Howe CJ (1998) Journal of Biological Chemistry 273 689-692
The distribution of photosystem I and photosystem II polypeptides between the cytoplasmic and thylakoid membranes of cyanobacteria. Smith D & Howe CJ (1993) FEMS Microbiology Letters 110 341-348
Plastid origin of an extrachromosomal DNA molecule from Plasmodium, the causative agent of malaria. Howe CJ (1992) Journal of Theoretical Biology 158 199-205
Occurrence of a photosystem II polypeptide in non-photosynthetic membranes of cyanobacteria. Smith D, Bendall DS & Howe CJ (1992) Molecular Microbiology 6 1821-1827
Sequence of Prochloron didemni atpBE and the inference of chloroplast origins. Lockhart PJ, Beanland TJ, Howe CJ & Larkum AWD (1992) Proceedings of the National Academy of Sciences USA 89 2742-2746
Substitutional bias confounds inference of cyanelle origins from sequence data. Lockhart PJ, Howe CJ, Bryant DA, Beanland TJ & Larkum AWD (1992) Journal of Molecular Evolution 34 153-162
Plants without chlorophyll. Howe CJ & Smith AG (1991) Nature 349 109 (not available online)
Gene sequence for the 9kDa component of photosystem II from the cyanobacterium Phormidium laminosum indicates similarities between cyanobacterial and other leader sequences. Wallace TP, Stewart AC, Pappin D & Howe CJ (1989) Molecular & General Genetics 216 334-339
Common features of three inversions in wheat chloroplast DNA. Howe CJ, Barker RF, Bowman CM & Dyer TA (1988) Current Genetics 13 343-349
Nucleotide sequences of the genes for the α, β and ε subunits of wheat chloroplast ATP synthase. Howe CJ, Fearnley IM, Walker JE, Dyer TA & Gray JC (1985) Plant Molecular Biology 4 334-345 (not available online)
Maize mitochondrial DNA contains a sequence homologous to the ribulose-1,5-bisphosphate carboxylase large subunit gene of chloroplast DNA. Lonsdale DM, Hodge TP, Howe CJ & Stern DB (1983) Cell 34 1007-1014
Location and nucleotide sequence of the gene for the proton-translocating subunit of wheat chloroplast ATP synthase. Howe CJ, Auffret AD, Doherty A, Bowman CM, Dyer TA & Gray JC (1982) Proceedings of the National Academy of Sciences USA 79 6903-6907
Localisation of genes for the β and ε subunits of wheat chloroplast ATP synthase. Howe CJ, Bowman CM, Dyer TA & Gray JC (1982) Molecular & General Genetics 186 525-530
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