bluuebunny/crossref_metadata_2025 huggingface dataset:
Callipyge mutation affects gene expression in cis: A potential role for chromatin structure
Authors: Murphy Susan K. , Nolan Catherine M. , Huang Zhiqing , Kucera Katerina S. , Freking Brad A. , Smith Timothy P.L. , Leymaster Kreg A. , Weidman Jennifer R. , Jirtle Randy L.
Published: January 2006

Muscular hypertrophy in callipyge sheep results from a single nucleotide substitution located in the genomic interval between the imprinted Delta, Drosophila, Homolog-like 1 (DLK1) and Maternally Expressed Gene 3 (MEG3). The mechanism linking the mutation to muscle hypertrophy is unclear but involves DLK1 overexpression. The mutation is contained within CLPG1 transcripts produced from this region. Herein we show that CLPG1 is expressed prenatally in the hypertrophy-responsive longissimus dorsi muscle by all four possible genotypes, but postnatal expression is restricted to sheep carrying the mutation. Surprisingly, the mutation results in nonimprinted monoallelic transcription of CLPG1 from only the mutated allele in adult sheep, whereas it is expressed biallelically during prenatal development. We further demonstrate that local CpG methylation is altered by the presence of the mutation in longissimus dorsi of postnatal sheep. For 10 CpG sites flanking the mutation, methylation is similar prenatally across genotypes, but doubles postnatally in normal sheep. This normal postnatal increase in methylation is significantly repressed in sheep carrying one copy of the mutation, and repressed even further in sheep with two mutant alleles. The attenuation in methylation status in the callipyge sheep correlates with the onset of the phenotype, continued CLPG1 transcription, and high-level expression of DLK1. In contrast, normal sheep exhibit hypermethylation of this locus after birth and CLPG1 silencing, which coincides with DLK1 transcriptional repression. These data are consistent with the notion that the callipyge mutation inhibits perinatal nucleation of regional chromatin condensation resulting in continued elevated transcription of prenatal DLK1 levels in adult callipyge sheep. We propose a model incorporating these results that can also account for the enigmatic normal phenotype of homozygous mutant sheep.
G-Protein-Coupled Receptor 1, G-Protein Gα-Subunit 1, and Prephenate Dehydratase 1 Are Required for Blue Light-Induced Production of Phenylalanine in Etiolated Arabidopsis
Authors: Warpeha Katherine Mary , Lateef Syed Salman , Lapik Yevgeniya , Anderson Marybeth , Lee Bao-Shiang , Kaufman Lon Seth
Published: January 2006

Different classes of plant hormones and different wavelengths of light act through specific signal transduction mechanisms to coordinate higher plant development. A specific prephenate dehydratase protein (PD1) was discovered to have a strong interaction with the sole canonical G-protein Gα-subunit (GPA1) in Arabidopsis (Arabidopsis thaliana). PD1 is a protein located in the cytosol, present in etiolated seedlings, with a specific role in blue light-mediated synthesis of phenylpyruvate and subsequently of phenylalanine (Phe). Insertion mutagenesis confirms that GPA1 and the sole canonical G-protein-coupled receptor (GCR1) in Arabidopsis also have a role in this blue light-mediated event. In vitro analyses indicate that the increase in PD1 activity is the direct and specific consequence of its interaction with activated GPA1. Because of their shared role in the light-mediated synthesis of phenylpyruvate and Phe, because they are iteratively interactive, and because activated GPA1 is directly responsible for the activation of PD1; GCR1, GPA1, and PD1 form all of or part of a signal transduction mechanism responsible for the light-mediated synthesis of phenylpyruvate, Phe, and those metabolites that derive from that Phe. Data are also presented to confirm that abscisic acid can act through the same pathway. An additional outcome of the work is the confirmation that phenylpyruvate acts as the intermediate in the synthesis of Phe in etiolated plants, as it commonly does in bacteria and fungi.
Wound-Induced Terpene Synthase Gene Expression in Sitka Spruce That Exhibit Resistance or Susceptibility to Attack by the White Pine Weevil
Authors: Byun-McKay Ashley , Godard Kimberley-Ann , Toudefallah Morteza , Martin Diane M. , Alfaro Rene , King John , Bohlmann Joerg , Plant Aine L.
Published: January 2006

We analyzed the expression pattern of various terpene synthase (TPS) genes in response to a wounding injury applied to the apical leader of Sitka spruce (Picea sitchensis Bong. Carr.) genotypes known to be resistant (R) or susceptible (S) to white pine weevil (Pissodes strobi Peck.) attack. The purpose was to test if differences in constitutive or wound-induced TPS expression can be associated with established weevil resistance. All wounding treatments were conducted on 9-year-old R and S trees growing under natural field conditions within the range of variation for weevil R and S genotypes. Representative cDNAs of the monoterpene synthase (mono-TPS), sesquiterpene synthase (sesqui-TPS), and diterpene synthase (di-TPS) classes were isolated from Sitka spruce to assess TPS transcript levels. Based on amino acid sequence similarity, the cDNAs resemble Norway spruce (Picea abies) (−)-linalool synthase (mono-TPS; PsTPS-Linl) and levopimaradiene/abietadiene synthase (di-TPS; PsTPS-LASl), and grand fir (Abies grandis) δ-selinene synthase (sesqui-TPS; PsTPS-Sell). One other mono-TPS was functionally identified as (−)-limonene synthase (PsTPS-Lim). No significant difference in constitutive expression levels for these TPSs was detected between R and S trees. However, over a postwounding period of 16 d, only R trees exhibited significant transcript accumulation for the mono- and sesqui-TPS tested. Both R and S trees exhibited a significant accumulation of PsTPS-LASl transcripts. An assessment of traumatic resin duct formation in wounded leaders showed that both R and S trees responded by forming traumatic resin ducts; however, the magnitude of this response was significantly greater in R trees. Collectively, our data imply that the induced resinosis response is an important aspect of defense in weevil R Sitka spruce trees growing under natural conditions.
An Arabidopsis Mutant Impaired in Coenzyme A Biosynthesis Is Sugar Dependent for Seedling Establishment
Authors: Rubio Silvia , Larson Tony R. , Gonzalez-Guzman Miguel , Alejandro Santiago , Graham Ian A. , Serrano Ramón , Rodriguez Pedro L.
Published: January 2006

Once the plant coenzyme A (CoA) biosynthetic pathway has been elucidated by comparative genomics, it is feasible to analyze the physiological relevance of CoA biosynthesis in plant life. To this end, we have identified and characterized Arabidopsis (Arabidopsis thaliana) T-DNA knockout mutants of two CoA biosynthetic genes, HAL3A and HAL3B. The HAL3A gene encodes a 4′-phosphopantothenoyl-cysteine decarboxilase that generates 4′-phosphopantetheine. A second gene, HAL3B, whose gene product is 86% identical to that of HAL3A, is present in the Arabidopsis genome. HAL3A appears to have a predominant role over HAL3B according to their respective mRNA expression levels. The hal3a-1, hal3a-2, and hal3b mutants were viable and showed a similar growth rate as that in wild-type plants; in contrast, a hal3a-1 hal3b double mutant was embryo lethal. Unexpectedly, seedlings that were null for HAL3A and heterozygous for HAL3B (aaBb genotype) displayed a sucrose (Suc)-dependent phenotype for seedling establishment, which is in common with mutants defective in β-oxidation. This phenotype was genetically complemented in aaBB siblings of the progeny and chemically complemented by pantethine. In contrast, seedling establishment of Aabb plants was not Suc dependent, proving a predominant role of HAL3A over HAL3B at this stage. Total fatty acid and acyl-CoA measurements of 5-d-old aaBb seedlings in medium lacking Suc revealed stalled storage lipid catabolism and impaired CoA biosynthesis; in particular, acetyl-CoA levels were reduced by approximately 80%. Taken together, these results provide in vivo evidence for the function of HAL3A and HAL3B, and they point out the critical role of CoA biosynthesis during early postgerminative growth.
Poplar Carbohydrate-Active Enzymes. Gene Identification and Expression Analyses
Authors: Geisler-Lee Jane , Geisler Matt , Coutinho Pedro M. , Segerman Bo , Nishikubo Nobuyuki , Takahashi Junko , Aspeborg Henrik , Djerbi Soraya , Master Emma , Andersson-Gunnerås Sara , Sundberg Björn , Karpinski Stanislaw , Teeri Tuula T. , Kleczkowski Leszek A. , Henrissat Bernard , Mellerowicz Ewa J.
Published: January 2006

Over 1,600 genes encoding carbohydrate-active enzymes (CAZymes) in the Populus trichocarpa (Torr. & Gray) genome were identified based on sequence homology, annotated, and grouped into families of glycosyltransferases, glycoside hydrolases, carbohydrate esterases, polysaccharide lyases, and expansins. Poplar (Populus spp.) had approximately 1.6 times more CAZyme genes than Arabidopsis (Arabidopsis thaliana). Whereas most families were proportionally increased, xylan and pectin-related families were underrepresented and the GT1 family of secondary metabolite-glycosylating enzymes was overrepresented in poplar. CAZyme gene expression in poplar was analyzed using a collection of 100,000 expressed sequence tags from 17 different tissues and compared to microarray data for poplar and Arabidopsis. Expression of genes involved in pectin and hemicellulose metabolism was detected in all tissues, indicating a constant maintenance of transcripts encoding enzymes remodeling the cell wall matrix. The most abundant transcripts encoded sucrose synthases that were specifically expressed in wood-forming tissues along with cellulose synthase and homologs of KORRIGAN and ELP1. Woody tissues were the richest source of various other CAZyme transcripts, demonstrating the importance of this group of enzymes for xylogenesis. In contrast, there was little expression of genes related to starch metabolism during wood formation, consistent with the preferential flux of carbon to cell wall biosynthesis. Seasonally dormant meristems of poplar showed a high prevalence of transcripts related to starch metabolism and surprisingly retained transcripts of some cell wall synthesis enzymes. The data showed profound changes in CAZyme transcriptomes in different poplar tissues and pointed to some key differences in CAZyme genes and their regulation between herbaceous and woody plants.
Nickel Deficiency Disrupts Metabolism of Ureides, Amino Acids, and Organic Acids of Young Pecan Foliage
Authors: Bai Cheng , Reilly Charles C. , Wood Bruce W.
Published: January 2006

The existence of nickel (Ni) deficiency is becoming increasingly apparent in crops, especially for ureide-transporting woody perennials, but its physiological role is poorly understood. We evaluated the concentrations of ureides, amino acids, and organic acids in photosynthetic foliar tissue from Ni-sufficient (Ni-S) versus Ni-deficient (Ni-D) pecan (Carya illinoinensis [Wangenh.] K. Koch). Foliage of Ni-D pecan seedlings exhibited metabolic disruption of nitrogen metabolism via ureide catabolism, amino acid metabolism, and ornithine cycle intermediates. Disruption of ureide catabolism in Ni-D foliage resulted in accumulation of xanthine, allantoic acid, ureidoglycolate, and citrulline, but total ureides, urea concentration, and urease activity were reduced. Disruption of amino acid metabolism in Ni-D foliage resulted in accumulation of glycine, valine, isoleucine, tyrosine, tryptophan, arginine, and total free amino acids, and lower concentrations of histidine and glutamic acid. Ni deficiency also disrupted the citric acid cycle, the second stage of respiration, where Ni-D foliage contained very low levels of citrate compared to Ni-S foliage. Disruption of carbon metabolism was also via accumulation of lactic and oxalic acids. The results indicate that mouse-ear, a key morphological symptom, is likely linked to the toxic accumulation of oxalic and lactic acids in the rapidly growing tips and margins of leaflets. Our results support the role of Ni as an essential plant nutrient element. The magnitude of metabolic disruption exhibited in Ni-D pecan is evidence of the existence of unidentified physiological roles for Ni in pecan.
A Segment of the Apospory-Specific Genomic Region Is Highly Microsyntenic Not Only between the Apomicts Pennisetum squamulatum and Buffelgrass, But Also with a Rice Chromosome 11 Centromeric-Proximal Genomic Region
Authors: Gualtieri Gustavo , Conner Joann A. , Morishige Daryl T. , Moore L. David , Mullet John E. , Ozias-Akins Peggy
Published: January 2006

Bacterial artificial chromosome (BAC) clones from apomicts Pennisetum squamulatum and buffelgrass (Cenchrus ciliaris), isolated with the apospory-specific genomic region (ASGR) marker ugt197, were assembled into contigs that were extended by chromosome walking. Gene-like sequences from contigs were identified by shotgun sequencing and BLAST searches, and used to isolate orthologous rice contigs. Additional gene-like sequences in the apomicts' contigs were identified by bioinformatics using fully sequenced BACs from orthologous rice contigs as templates, as well as by interspecies, whole-contig cross-hybridizations. Hierarchical contig orthology was rapidly assessed by constructing detailed long-range contig molecular maps showing the distribution of gene-like sequences and markers, and searching for microsyntenic patterns of sequence identity and spatial distribution within and across species contigs. We found microsynteny between P. squamulatum and buffelgrass contigs. Importantly, this approach also enabled us to isolate from within the rice (Oryza sativa) genome contig Rice A, which shows the highest microsynteny and is most orthologous to the ugt197-containing C1C buffelgrass contig. Contig Rice A belongs to the rice genome database contig 77 (according to the current September 12, 2003, rice fingerprint contig build) that maps proximal to the chromosome 11 centromere, a feature that interestingly correlates with the mapping of ASGR-linked BACs proximal to the centromere or centromere-like sequences. Thus, relatedness between these two orthologous contigs is supported both by their molecular microstructure and by their centromeric-proximal location. Our discoveries promote the use of a microsynteny-based positional-cloning approach using the rice genome as a template to aid in constructing the ASGR toward the isolation of genes underlying apospory.
High-Affinity Nitrate Transport in Roots of Arabidopsis Depends on Expression of the NAR2-Like Gene AtNRT3.1
Authors: Okamoto Mamoru , Kumar Anshuman , Li Wenbin , Wang Ye , Siddiqi M. Yaeesh , Crawford Nigel M. , Glass Anthony D.M.
Published: January 2006

The NAR2 protein of Chlamydomonas reinhardtii has no known transport activity yet it is required for high-affinity nitrate uptake. Arabidopsis (Arabidopsisthaliana) possesses two genes, AtNRT3.1 and AtNRT3.2, that are similar to the C. reinhardtiiNAR2 gene. AtNRT3.1 accounts for greater than 99% of NRT3 mRNA and is induced 6-fold by nitrate. AtNRT3.2 was expressed constitutively at a very low level and did not compensate for the loss of AtNRT3.1 in two Atnrt3.1 mutants. Nitrate uptake by roots and nitrate induction of gene expression were analyzed in two T-DNA mutants, Atnrt3.1-1 and Atnrt3.1-2, disrupted in the AtNRT3.1 promoter and coding regions, respectively, in 5-week-old plants. Nitrate induction of the nitrate transporter genes AtNRT1.1 and AtNRT2.1 was reduced in Atnrt3.1 mutant plants, and this reduced expression was correlated with reduced nitrate concentrations in the tissues. Constitutive high-affinity influx was reduced by 34% and 89%, respectively, in Atnrt3.1-1 and Atnrt3.1-2 mutant plants, while high-affinity nitrate-inducible influx was reduced by 92% and 96%, respectively, following induction with 1 mm KNO3 after 7 d of nitrogen deprivation. By contrast, low-affinity influx appeared to be unaffected. Thus, the constitutive high-affinity influx and nitrate-inducible high-affinity influx (but not the low-affinity influx) of higher plant roots require a functional AtNRT3 (NAR2) gene.
A Central Role for the Nitrate Transporter NRT2.1 in the Integrated Morphological and Physiological Responses of the Root System to Nitrogen Limitation in Arabidopsis
Authors: Remans Tony , Nacry Philippe , Pervent Marjorie , Girin Thomas , Tillard Pascal , Lepetit Marc , Gojon Alain
Published: January 2006

Up-regulation of the high-affinity transport system (HATS) for NO3− and stimulation of lateral root (LR) growth are two important adaptive responses of the root system to nitrogen limitation. Up-regulation of the NO3− HATS by nitrogen starvation is suppressed in the atnrt2.1-1 mutant of Arabidopsis (Arabidopsis thaliana), deleted for both NRT2.1 and NRT2.2 nitrate transporter genes. We then used this mutant to determine whether lack of HATS stimulation affected the response of the root system architecture (RSA) to low NO3− availability. In Wassilewskija (Ws) wild-type plants, transfer from high to low NO3− medium resulted in contrasting responses of RSA, depending on the level of nitrogen limitation. Moderate nitrogen limitation (transfer from 10 mm to 1 or 0.5 mm NO3−) mostly led to an increase in the number of visible laterals, while severe nitrogen stress (transfer from 10 mm to 0.1 or 0.05 mm NO3−) promoted mean LR length. The RSA response of the atnrt2.1-1 mutant to low NO3− was markedly different. After transfer from 10 to 0.5 mm NO3−, the stimulated appearance of LRs was abolished in atnrt2.1-1 plants, whereas the increase in mean LR length was much more pronounced than in Ws. These modifications of RSA mimicked those of Ws plants subjected to severe nitrogen stress and could be fully explained by the lowered NO3− uptake measured in the mutant. This suggests that the uptake rate of NO3−, rather than its external concentration, is the key factor triggering the observed changes in RSA. However, the mutation of NRT2.1 was also found to inhibit initiation of LR primordia in plants subjected to nitrogen limitation independently of the rate of NO3− uptake by the whole root system and even of the presence of added NO3− in the external medium. This indicates a direct stimulatory role for NRT2.1 in this particular step of LR development. Thus, it is concluded that NRT2.1 has a key dual function in coordinating root development with external NO3− availability, both indirectly through its role as a major NO3− uptake system that determines the nitrogen uptake-dependent RSA responses, and directly through a specific action on LR initiation under nitrogen-limited conditions.
Interaction between Arabidopsis Brca2 and Its Partners Rad51, Dmc1, and Dss1
Authors: Dray Eloïse , Siaud Nicolas , Dubois Emeline , Doutriaux Marie-Pascale
Published: January 2006

The Arabidopsis (Arabidopsis thaliana) orthologs of Brca2, a protein whose mutations are involved in breast cancer in humans, were previously shown to be essential at meiosis. In an attempt to better understand the Brca2-interacting properties, we examined four partners of the two isoforms of Brca2 identified in Arabidopsis (AtRad51, AtDmc1, and two AtDss1 isoforms). The two Brca2 and the two Dss1 isoforms are named AtBrca2(IV), AtBrca2(V), AtDss1(I), and AtDss1(V) after their chromosomal localization. We first show that both AtBrca2 proteins can interact with either AtRad51 or AtDmc1 in vitro, and that the N-terminal region of AtBrca2 is responsible for these interactions. More specifically, the BRC motifs (so called because iterated in the Brca2 protein) in Brca2 are involved in these interactions: BRC motif number 2 (BRC2) alone can interact with AtDmc1, whereas BRC motif number 4 (BRC4) recognizes AtRad51. The human Rad51 and Dmc1 proteins themselves can interact with either the complete (HsRad51) or a shorter version of AtBrca2 (HsRad51 or HsDmc1) that comprises all four BRC motifs. We also identified two Arabidopsis isoforms of Dss1, another known partner of Brca2 in other organisms. Although all four Brca2 and Dss1 proteins are much conserved, AtBrca2(IV) interacts with only one of these AtDss1 proteins, whereas AtBrca2(V) interacts with both of them. Finally, we show for the first time that an AtBrca2 protein could bind two different partners at the same time: AtRad51 and AtDss1(I), or AtDmc1 and AtDss1(I).
The Epidermis-Specific Extracellular BODYGUARD Controls Cuticle Development and Morphogenesis inArabidopsis
Authors: Kurdyukov Sergey , Faust Andrea , Nawrath Christiane , Bär Sascha , Voisin Derry , Efremova Nadia , Franke Rochus , Schreiber Lukas , Saedler Heinz , Métraux Jean-Pierre , Yephremov Alexander
Published: January 2006

The outermost epidermal cell wall is specialized to withstand pathogens and natural stresses, and lipid-based cuticular polymers are the major barrier against incursions. The Arabidopsis thaliana mutant bodyguard (bdg), which exhibits defects characteristic of the loss of cuticle structure not attributable to a lack of typical cutin monomers, unexpectedly accumulates significantly more cell wall–bound lipids and epicuticular waxes than wild-type plants. Pleiotropic effects of the bdg mutation on growth, viability, and cell differentiation are also observed. BDG encodes a member of the α/β-hydrolase fold protein superfamily and is expressed exclusively in epidermal cells. Using Strep-tag epitope-tagged BDG for mutant complementation and immunolocalization, we show that BDG is a polarly localized protein that accumulates in the outermost cell wall in the epidermis. With regard to the appearance and structure of the cuticle, the phenotype conferred by bdg is reminiscent of that of transgenic Arabidopsis plants that express an extracellular fungal cutinase, suggesting that bdg may be incapable of completing the polymerization of carboxylic esters in the cuticular layer of the cell wall or the cuticle proper. We propose that BDG codes for an extracellular synthase responsible for the formation of cuticle. The alternative hypothesis proposes that BDG controls the proliferation/differentiation status of the epidermis via an unknown mechanism.
Members of a Novel Class of Arabidopsis Rho Guanine Nucleotide Exchange Factors Control Rho GTPase-Dependent Polar Growth
Authors: Gu Ying , Li Shundai , Lord Elizabeth M. , Yang Zhenbiao
Published: January 2006

Rho family small GTPases are signaling switches controlling many eukaryotic cellular processes. Conversion from the GDP- to GTP-bound form is catalyzed by guanine nucleotide exchange factors (GEFs). Rho GEFs in animals fall into two structurally distinct classes containing DH and DOCKER catalytic domains. Using a plant Rho GTPase (ROP1) as bait in yeast two-hybrid screens, we identified a family of Rho GEFs, named RopGEFs. The Arabidopsis thaliana RopGEF family of 14 members contains a conserved central domain, the domain of unknown function 315 (DUF315), and variable N- and C-terminal regions. In vitro GEF assays show that DUF315 but not the full-length version of RopGEF1 has high GEF activity toward ROP1. Our data suggest that the variable regions of RopGEF1 are involved in regulation of RopGEF through an autoinhibitory mechanism. RopGEF1 overexpression in pollen tubes produced growth depolarization, as does a constitutively active ROP1 mutant. The RopGEF1 overexpression phenotype was suppressed by expression of a dominant-negative mutant of ROP1, probably by trapping RopGEF1. Deletion mutant analysis suggested a requirement of RopGEF activity for the function of RopGEF1 in polar growth. Green fluorescent protein–tagged RopGEF1 was localized to the tip of pollen tubes where ROP1 is activated. These results provide strong evidence that RopGEF1 activates ROP1 in control of polar growth in pollen tubes.
The A-Type Cyclin CYCA2;3 Is a Key Regulator of Ploidy Levels inArabidopsisEndoreduplication
Authors: Imai Kumiko K. , Ohashi Yohei , Tsuge Tomohiko , Yoshizumi Takeshi , Matsui Minami , Oka Atsuhiro , Aoyama Takashi
Published: January 2006

Plant cells frequently undergo endoreduplication, a process in which chromosomal DNA is successively duplicated in the absence of mitosis. It has been proposed that endoreduplication is regulated at its entry by mitotic cyclin-dependent kinase activity. However, the regulatory mechanisms for its termination remain unclear, although plants tightly control the ploidy level in each cell type. In the process of searching for regulatory factors of endoreduplication, the promoter of an Arabidopsis thaliana cyclin A gene, CYCA2;3, was revealed to be active in developing trichomes during the termination period of endoreduplication as well as in proliferating tissues. Taking advantage of the situation that plants encode highly redundant cyclin A genes, we were able to perform functional dissection of CYCA2;3 using null mutant alleles. Null mutations of CYCA2;3 semidominantly promoted endocycles and increased the ploidy levels achieved in mature organs, but they did not significantly affect the proportion of cells that underwent endoreduplication. Consistent with this result, expression of the CYCA2;3–green fluorescent protein fusion protein restrained endocycles in a dose-dependent manner. Moreover, a mutation in the destruction box of CYCA2;3 stabilized the fusion protein in the nuclei and enhanced the restraint. We conclude that CYCA2;3 negatively regulates endocycles and acts as a key regulator of ploidy levels in Arabidopsis endoreduplication.
Involvement of a Glycerol-3-Phosphate Dehydrogenase in Modulating the NADH/NAD+ Ratio Provides Evidence of a Mitochondrial Glycerol-3-Phosphate Shuttle in Arabidopsis
Authors: Shen Wenyun , Wei Yangdou , Dauk Melanie , Tan Yifang , Taylor David C. , Selvaraj Gopalan , Zou Jitao
Published: January 2006

A mitochondrial glycerol-3-phosphate (G-3-P) shuttle that channels cytosolic reducing equivalent to mitochondria for respiration through oxidoreduction of G-3-P has been extensively studied in yeast and animal systems. Here, we report evidence for the operation of such a shuttle in Arabidopsis thaliana. We studied Arabidopsis mutants defective in a cytosolic G-3-P dehydrogenase, GPDHc1, which, based on models described for other systems, functions as the cytosolic component of a G-3-P shuttle. We found that the gpdhc1 T-DNA insertional mutants exhibited increased NADH/NAD+ ratios compared with wild-type plants under standard growth conditions, as well as impaired adjustment of NADH/NAD+ ratios under stress simulated by abscisic acid treatment. The altered redox state of the NAD(H) pool was correlated with shifts in the profiles of metabolites concerning intracellular redox exchange. The impairment in maintaining cellular redox homeostasis was manifest by a higher steady state level of reactive oxygen species under standard growth conditions and by a significantly augmented hydrogen peroxide production under stress. Loss of GPDHc1 affected mitochondrial respiration, particularly through a diminished capacity of the alternative oxidase respiration pathway. We propose a model that outlines potential involvements of a mitochondrial G-3-P shuttle in plant cells for redox homeostasis.
Productivity Growth in the UK Regions, 1968–1991
Authors: Harris Richard I. D. , Trainor Mary
Published: January 2006

This paper provides estimates of total factor productivity growth for the regions of the UK. It shows that the peripheral regions generally performed better than the national average in the 1980's. A model to explain TFP growth found that much of this increase can be attributed to a general upskilling of a more flexible workforce, falling plant sizes, and a ‘catch‐up’ effect in the unionized sector.
Latitudinal gradients in the phenetic diversity of New World bat communities
Authors: Stevens Richard D. , Willig Michael R. , Strauss Richard E.
Published: January 2006

Although the examination of latitudinal gradients of species richness is common, little attention has been devoted to other components of biodiversity such as phenetic diversity. Because the phenotype reflects aspects of an organism's environment, ecological relationships and evolutionary history, measures of phenetic diversity likely provide complimentary information to that of species richness, and may provide unique insights for understanding the mechanistic basis to patterns of biodiversity. Herein, we evaluate latitudinal gradients in the phenetic diversity of 32 New World bat communities. Seven morphological characters were used to estimate phenotypic variation among bat species within local communities. Principal components analysis decomposed this variation into axes of size and shape. Three measures of phenetic diversity were calculated separately for size and for shape axes. The range of species scores on a particular axis described the amount of phenetic variation encompassed by species in a community. The standard deviation of minimum spanning‐tree segment lengths described uniformity of species. Average nearest‐neighbor distances described local packing. We separately regressed these six measures on local species richness and latitude separately. Variation in species richness accounted for a significant amount of variation in each measure of phenetic diversity. Latitude also accounted for significant variation in phenetic diversity except for the standard deviation of minimum‐spanning tree segment lengths and the average nearest‐neighbor distance on the shape axis. More importantly, gradients in phenetic diversity were significantly different than would be expected as a consequence of latitudinal gradients in species richness. Nonetheless, when variation among communities regarding the richness and composition of their regional faunas was taken into consideration, differences between empirical and simulated gradients were nonsignificant. Thus, factors that determine the composition of regional faunas have a great impact on the phenetic diversity of communities and ultimately the latitudinal gradient in biodiversity.
Disease dynamics, host specificity and pathogen persistence in isolated host populations
Authors: Carlsson‐Granér Ulla
Published: January 2006

In situations where populations of related host species grow sympatrically but isolated from other populations of either host, cross‐species disease transmission can have large influences on disease dynamic and patterns of pathogen persistence. This study examined host–pathogen dynamics and the degree of host‐specificity in the anther‐smut fungus Microbotryum violaceum at a site where two of its host species, Lychnis alpina and Silene rupestris, grew in adjacent patches which were located at large distances from the nearest intra‐specific host and pathogen populations. In a field‐study carried out over a four‐year period in the sympatric populations, the two host species exhibited broadly parallel patterns of mortality and recruitment across years, although higher rates of mortality and infection, and larger fluctuations in numbers of plants, were seen in the S. rupestris population. However, when the frequency of disease in the populations was taken into account, disease transmission rates were relatively similar in the two hosts. In a reciprocal cross‐inoculation experiment, there were no differences in infectivity between the two fungal populations on progeny of the two hosts from the sympatric populations indicating that cross‐species disease transmission is possible. Patterns of infectivity on plants from the sympatric populations and allopatric populations of each host indicated the occurrence of a host shift in M. violaceum from L. alpina onto S. rupestris at the sympatric site. Results from a population model, parameterised with the demographic data from the two hosts, demonstrated that some cross‐species disease transmission could increase the frequency of disease and lower the threshold level of pathogen persistence in populations. The population model also suggests that high levels of juvenile infection, as observed in both hosts, may increase the probability of pathogen persistence in local populations, especially in the more short‐lived S. rupestris.
Regional effects on competition–productivity relationship: a set of field experiments in two distant regions
Authors: Sammul Marek , Oksanen Lauri , Mägi Merike
Published: January 2006

We studied the effect of productivity on competition intensity and the relationship between competition intensity and community species richness, using a removal experiment with the perennial plant Solidago virgaurea. The experiment was conducted in 16 different communities from two geographically distant areas (western Estonia and northern Norway). The results were compared with the results of previous experiments with Anthoxanthum odoratum from the same areas. Removal of neighbors had a positive effect on the biomass of both Solidago and Anthoxanthum, and this response was stronger in communities with higher productivity. Thus, the corrected index of relative competition intensity, CRCI, increased with increasing community productivity. Species richness was negatively correlated with CRCI in Estonia but not in Norway and not in the case of the pooled material. The results suggest that competitive exclusion operates at least in these communities which species pool is large.

Our results indicate that the relationship between competition intensity and productivity is non‐linear. In our data, competition prevails in communities where living plant biomass exceeds 200 g m−2, whereas in less productive communities, competition remains undetected and direct plant–plant relationships might at times be even mutualistic. Moreover, we found that the relationship between competition intensity and productivity is strongly dependent on regional differences and is intimately connected to a concordant variation in the intensity of grazing. The least productive communities both in Estonia and in Norway are characterized by intensive grazing, which reduces importance of competition. Hence, the contrasting results corroborates the predictions of the hypothesis of exploitation ecosystems, predicting that trophic dynamics account for the relationship between competition intensity and primary productivity.
Dispersal and mortality of prairie voles (Microtus ochrogaster) in fragmented landscapes: a field experiment
Authors: E. Smith Jennifer , O. Batzli George
Published: January 2006

We conducted a field experiment that manipulated landscapes by mowing so that the amount of unfavorable habitat (low cover) for prairie voles (Microtus ochrogaster) increased while the number and size of favorable patches (high cover) remained constant. Distance between favorable patches increased as the amount of unfavorable habitat increased, so we could test two current hypotheses concerning the effect of habitat fragmentation on local populations: 1) increased distance between favorable habitat patches reduces successful per capita dispersal (emigration and immigration) because dispersers suffer greater exposure to predators (the predation hypothesis); and 2) per capita dispersal is inversely density dependent in voles because increased aggression at higher density inhibits movements (the social fence hypothesis). As predicted by the predation hypothesis, increased distance between favorable habitat patches led to decreased successful dispersal among patches and increased per capita mortality, particularly among subadult and adult males (the categories of voles most likely to emigrate). As predicted by the social fence hypothesis, dispersal was inversely density dependent, and dispersing voles displayed a greater frequency of wounding (an indication of increased aggressive interactions) than did residents. The amount of wounding in general did not increase with density, however, and, as distance between patches increased to 60 m, successful dispersal became rare and erratic. Nevertheless, our overall results supported current hypotheses regarding the effects of increased habitat fragmentation on patterns of dispersal and mortality. Examining the impact of these effects on local population dynamics within different landscapes will require longer periods of observation.
Elevated CO2 levels and herbivore damage alter host plant preferences
Authors: Agrell Jep , Anderson Peter , Oleszek Wieslaw , Stochmal Anna , Agrell Cecilia
Published: January 2006

Interactions between the moth Spodoptera littoralis and two of its host plants, alfalfa (Medicago sativa) and cotton (Gossypium hirsutum) were examined, using plants grown under ambient (350 ppm) and elevated (700 ppm) CO2 conditions. To determine strength and effects of herbivore‐induced responses assays were performed with both undamaged (control) and herbivore damaged plants. CO2 and damage effects on larval host plant preferences were determined through dual‐choice bioassays. In addition, larvae were reared from hatching to pupation on experimental foliage to examine effects on larval growth and development.

When undamaged plants were used S. littoralis larvae in consumed more cotton than alfalfa, and CO2 enrichment caused a reduction in the preference for cotton. With damaged plants larvae consumed equal amounts of the two plant species (ambient CO2 conditions), but CO2 enrichment strongly shifted preferences towards cotton, which was then consumed three times more than alfalfa. Complementary assays showed that elevated CO2 levels had no effect on the herbivore‐induced responses of cotton, whereas those of alfalfa were significantly increased. Larval growth was highest for larvae fed undamaged cotton irrespectively of CO2 level, and lowest for larvae on damaged alfalfa from the high CO2 treatment. Development time increased on damaged cotton irrespectively of CO2 treatment, and on damaged alfalfa in the elevated CO2 treatment.

These results demonstrate that elevated CO2 levels can cause insect herbivores to alter host plant preferences, and that effects on herbivore‐induced responses may be a key mechanism behind these processes. Furthermore, since the insects were shown to avoid foliage that reduced their physiological performance, our data suggest that behavioural host plant shifts result in partial escape from negative consequences of feeding on high CO2 foliage. Thus, CO2 enrichment can alter both physiology and behaviour of important insect herbivores, which in turn may to impact plant biodiversity.
Habitat use under latent predation risk. A case study with wintering forest birds
Authors: Carrascal Luis M. , Alonso César Luis
Published: January 2006

We test whether the spatial distribution of birds within a habitat is determined by predation risk and also by interspecific competition. The work was carried out in a montane mixed forest of central Spain with four Parus species, the long‐tailed tit (Aegithalos caudatus) and the nuthatch (Sitta europaea). Experimental feeders, that varied in their risk of predation, were used to control the effect of natural variations in food availability and quality on the habitat use patterns of different species. Tree gleaning passerines avoided feeding on dark inner forest places far from edges, distant from protective cover, outside the inner tree canopy and near the ground; they preferred deciduous, relatively clear forest plots. These effects remained invariable across years and weather conditions. There was a common pattern of selection of foraging locations by the four Parus species: proximity to cover and height above ground and over the lowest branches of the tree canopy positively influenced the use of feeding places. According to these patterns, the vigilance proportion of species was significantly higher when feeding far from cover than when birds were feeding near pine foliage. This pattern was also common for the four studied Parus species. Nevertheless, the interspecific dominance hierarchy of the species was positively correlated with the use of the safest feeders (feeders farther the ground and nearer from protective cover within tree canopy), being the converse with the most exposed ones. Therefore, the results of this paper demonstrate that the selection of feeding locations within habitat follows a pattern minimizing predation risk. Interspecific dominance hierarchies can lead to the exploitation of unfavourable risky patches by subordinate species.
Allometry and selection in a novel predator–prey system: Australian snakes and the invading cane toad
Authors: Phillips Ben L. , Shine Richard
Published: January 2006

Because many organismal traits vary with body size, interactions between species can be affected by the respective body sizes of the participants. We focus on a novel predator–prey system involving an introduced, highly toxic anuran (the cane toad, Bufo marinus) and native Australian snakes. The chance of a snake dying after ingesting a toad depends on the size of the snake and the size of the toad, and ultimately reflects the effect of four allometries: (1) physiological tolerance (the rate that physiological tolerance to toad toxin changes with snake size); (2) swallowing ability (the rate that maximal ingestible toad size (i.e. snake head size) increases with snake body size); (3) prey size (the rate that prey size taken by snakes increases with snake head size) and (4) toad toxicity (the rate that toxicity increases with toad size). We measured these allometries, and combined them to estimate the rate at which a snake's resistance changes with toad toxicity. The parotoid glands (and thus, toxicity) of toads increased disproportionately with toad size (i.e. relative to body size, larger toads were more toxic) but simultaneously, head size relative to body size (and thus, maximal ingestible prey size relative to predator size) declined with increasing body size in snakes. Thus, these two allometries tended to cancel each other out. Physiological tolerance to toxins did not vary with snake body size. The end result was that across snake species, mean adult body size did not affect vulnerability. Within species, however, smaller predators were more vulnerable, because the intraspecific rate of decrease in relative head size of snakes was steeper than the rate of increase in toxicity of toads. Thus, toad invasion may cause disproportionate mortality of juvenile snakes, and adults of the sex with smaller mean adult body sizes.
Consequences of prolonged clonal growth on local and regional genetic structure and fruiting success of the forest perennial Maianthemum bifolium
Authors: Honnay Olivier , Jacquemyn Hans , Roldán‐Ruiz Isabel , Hermy Martin
Published: January 2006

The balance between clonal propagation and sexual reproduction varies among species. Although theory predicts an impact of clonal growth on both‐ within‐ and between population genetic structure, most empirical evidence available to date does not reveal sharp differences between sexually reproducing and clonal species. This has been attributed mainly to the fact that even low levels of sexual recruitment can maintain high levels of genetic diversity. Here we study the effects of prolonged clonal growth and very low rates of sexual recruitment on the genetic structure of the perennial Maianthemum bifolium, an outcrossing understorey species of temperate forests. Average genotypic diversity (0.37) of the populations, as revealed by AFLP, was above the average values reported for species of similar characteristics, but some populations were extremely poor in genotypes. Fruiting success was positively correlated with genotypic diversity, probably as a result of shortage in mating types and compatible pollen in populations poor in genotypes. This was confirmed by a pollination experiment. Fruiting success increased by a factor three when individuals were hand‐pollinated with pollen from a nearby population compared to hand‐pollinations with pollen from the own population. Furthermore, the fruiting success after natural pollination (control individuals) was positively related to number of nearby populations which could act as pollen sources. Given the limited colonization capacity of the species (no seed flow), and the long time since fragmentation of the forest fragments studied, between‐population genetic differentiation was relatively low (Φst=0.14). Lack of genetic drift due to long generation times and very limited sexual recruitment is probably responsible for this. Our results show that prolonged clonal growth and lack of sexual recruitment may affect within‐ and between‐ population genetic structure and the capability for sexual reproduction.
Small habitat size and isolation can promote species richness: second‐order effects on biodiversity in shallow lakes and ponds
Authors: Scheffer M. , Van Geest G. J. , Zimmer K. , Jeppesen E. , Søndergaard M. , Butler M. G. , Hanson M. A. , Declerck S. , De Meester L.
Published: January 2006

Contemporary ecological landscape planning is often based on the assumption that small isolated habitat patches sustain relatively few species. Here, we suggest that for shallow lakes and ponds, the opposite can be true for some groups of organisms. Fish communities tend to be poor or even absent in small isolated lakes. However, submerged vegetation is often more abundant in such waterbodies. As a consequence of low fish biomass and high vegetation abundance, the richness of aquatic birds, plants, amphibians and invertebrates is often relatively high in small, shallow, isolated lakes. Although the rarity of fish is in line with expectations from the ruling paradigms about effects of habitat fragmentation in landscape ecology, the relative richness of various other groups of organisms in small ponds is opposite to these expectations. The case of shallow lakes illustrates that incorporating ecological interactions is essential to understanding the potential effects of habitat fragmentation. Single‐species meta‐population approaches may be misleading if ecological interactions are strong. A meta‐community approach that explicitly incorporates biotic interactions, also those involving different trophic levels, is needed. Our diagnosis suggests that connection of isolated habitat fragments may in some cases reduce, rather than enhance, landscape‐level biodiversity, and implies that biodiversity at the regional level will be maximized if the local habitat patches vary widely in size and degree of connectivity.
Recent changes in body weight and wing length among some British passerine birds
Authors: Yom‐Tov Yoram , Yom‐Tov Shlomith , Wright Jonathan , J. R. Thorne Chris , Du Feu Richard
Published: January 2006

We tested the prediction that global warming has caused recent decreases in body weight (Bergmann's rule) and increases in wing length (Allen's rule) in 14 species of passerine birds at two localities in England: Wicken Fen (1968–2003) and Treswell Wood (1973–2003).

Predicted long‐term linear decreases in residual body weight occurred in four species: dunnocks (Wicken Fen), and great tits, blue tits and bullfinches (Treswell Wood). Non‐linear decreases also occurred in reed warblers and blackcaps at Wicken Fen, which also had a surprising linear increase in residual body weight in blackbirds.

Residual wing lengths increased linearly, as predicted, in six of seven species at Wicken Fen. Whereas there were non‐linear long‐term increases in wrens, dunnocks and blackbirds in Treswell Wood. Unexpected linear decreases also occurred in residual wing lengths in willow warblers (Wicken Fen), and blue tits, great tits and chaffinches (Treswell Wood).

The most parsimonious explanation for such long‐term changes in body weight is global warming, as predicted by Bergmann's rule. Greater site and species‐specific effects on wing length (e.g. non‐linear changes plus shorter wings in the woodland habitat) suggest a less straightforward conclusion concerning Allen's rule, probably because wing length involved variation in both bone and feather growth.

Changes in residual body weights and wing lengths often differed between species and were sometimes non‐linear, perhaps reflecting short‐term modifications in selection pressures. Human‐induced influences are discussed, such as avian predator population densities and land‐use change. Short‐term variation in temperature had little effect, but rainfall did explain the unusual increase in blackbird body weight, possibly as a result of improving food (earthworm) availability.