X-linkage of a vitellogenin gene in Locusta migratoria

The gluconeogenic glucose-6-phosphatase gene is expressed during oxygen-limited conditions in the white shrimp Penaeus (Litopenaeus) vannamei: Molecular cloning, membrane protein modeling and transcript modulation in gills and hepatopancreas

The white shrimp Penaeus (Litopenaeus) vannamei is the most economically important crustacean species cultivated in the Western Hemisphere. This crustacean shifts its metabolism to survive under extreme environmental conditions such as hypoxia, although for a limited time. Glucose-6-phosphatase (G6Pase) is a key enzyme contributing to maintain blood glucose homeostasis through gluconeogenesis and glycogenolysis. To our knowledge, there are no current detailed studies about cDNA or gene sequences of G6Pase from any crustacean reported. Herein we report the shrimp P. (L.) vannamei cDNA and gene sequences. The gene contains seven exons interrupted by six introns. The deduced amino acid sequence has 35% identity to other homolog proteins, with the catalytic amino acids conserved and phylogenetically close to the corresponding invertebrate homologs. Protein molecular modeling predicted eight transmembrane helices with the catalytic site oriented towards the lumen of the endoplasmic reticulum. G6Pase expression under normoxic conditions was evaluated in hepatopancreas, gills, and muscle and the highest transcript abundance was detected in hepatopancreas. In response to different times of hypoxia, G6Pase mRNA expression did not change in hepatopancreas and became undetectable in muscle; however, in gills, its expression increased after 3 h and 24 h of oxygen limitation, indicating its essential role to maintain glycemic control in these conditions.

Regulation of glyceraldehyde-3-phosphate dehydrogenase by hypoxia inducible factor 1 in the white shrimp Litopenaeus vannamei during hypoxia and reoxygenation

Hypoxia is a frequent source of stress in the estuarine habitat of the white shrimp Litopenaeus vannamei. During hypoxia, L. vannamei gill cells rely more heavily on anaerobic glycolysis to obtain ATP. This is mediated by transcriptional up-regulation of glycolytic enzymes including glyceraldehyde-3-phosphate dehydrogenase (GAPDH). The hypoxia inducible factor 1 (HIF-1) is an important transcriptional activator of several glycolytic enzymes during hypoxia in diverse animals, including crustaceans. In this work, we cloned and sequenced a fragment corresponding to the 5' flank of the GAPDH gene and identified a putative HIF-1 binding site, as well as sites for other transcription factors involved in the hypoxia signaling pathway. To investigate the role of HIF-1 in GAPDH regulation, we simultaneously injected double-stranded RNA (dsRNA) into shrimp to silence HIF-1α and HIF-1β under normoxia, hypoxia, and hypoxia followed by reoxygenation, and then measured gill HIF-1α, HIF-1β expression, GAPDH expression and activity, and glucose and lactate concentrations at 0, 3, 24 and 48 h. During normoxia, HIF-1 silencing induced up-regulation of GAPDH transcripts and activity, suggesting that expression is down-regulated via HIF-1 under these conditions. In contrast, HIF-1 silencing during hypoxia abolished the increases in GAPDH expression and activity, glucose and lactate concentrations. Finally, HIF-1 silencing during hypoxia-reoxygenation prevented the increase in GAPDH expression, however, those changes were not reflected in GAPDH activity and lactate accumulation. Altogether, these results indicate that GAPDH and glycolysis are transcriptionally regulated by HIF-1 in gills of white shrimp.

The glyceraldehyde-3-phosphate dehydrogenase of the shrimp Litopenaeus vannamei: Molecular cloning, characterization and expression during hypoxia

Some marine crustaceans like the white shrimp Litopenaeus vannamei are tolerant to environmental hypoxia. Under oxygen deprivation, shrimp tissues obtain energy by enhancing anaerobic glycolysis. In mammals, hypoxia increases the expression of the glycolytic enzyme glyceraldehyde-3-phosphate dehydrogenase (GAPDH), which has been shown a "moonlighting" role in cells. However, the effect of hypoxia on the GAPDH expression has not been studied in crustaceans. In the present work, we obtained a 2744 bp gene sequence with a 999 bp ORF split by a single intron. The deduced protein is 332 amino acids and corresponds to the L. vannamei GAPDH (LvGAPDH), which is highly similar in sequence and structure to other animal GAPDHs. During hypoxia, LvGAPDH expression is significantly induced in gills but not in hepatopancreas, suggesting that it may play a role in the molecular and cellular response of shrimp to hypoxia.

Multifaceted biological insights from a draft genome sequence of the tobacco hornworm moth, Manduca sexta

Manduca sexta, known as the tobacco hornworm or Carolina sphinx moth, is a lepidopteran insect that is used extensively as a model system for research in insect biochemistry, physiology, neurobiology, development, and immunity. One important benefit of this species as an experimental model is its extremely large size, reaching more than 10 g in the larval stage. M. sexta larvae feed on solanaceous plants and thus must tolerate a substantial challenge from plant allelochemicals, including nicotine. We report the sequence and annotation of the M. sexta genome, and a survey of gene expression in various tissues and developmental stages. The Msex_1.0 genome assembly resulted in a total genome size of 419.4 Mbp. Repetitive sequences accounted for 25.8% of the assembled genome. The official gene set is comprised of 15,451 protein-coding genes, of which 2498 were manually curated. Extensive RNA-seq data from many tissues and developmental stages were used to improve gene models and for insights into gene expression patterns. Genome wide synteny analysis indicated a high level of macrosynteny in the Lepidoptera. Annotation and analyses were carried out for gene families involved in a wide spectrum of biological processes, including apoptosis, vacuole sorting, growth and development, structures of exoskeleton, egg shells, and muscle, vision, chemosensation, ion channels, signal transduction, neuropeptide signaling, neurotransmitter synthesis and transport, nicotine tolerance, lipid metabolism, and immunity. This genome sequence, annotation, and analysis provide an important new resource from a well-studied model insect species and will facilitate further biochemical and mechanistic experimental studies of many biological systems in insects.

A simple sequence repeat- and single-nucleotide polymorphism-based genetic linkage map of the brown planthopper, Nilaparvata lugens

In this study, we developed the first genetic linkage map for the major rice insect pest, the brown planthopper (BPH, Nilaparvata lugens). The linkage map was constructed by integrating linkage data from two backcross populations derived from three inbred BPH strains. The consensus map consists of 474 simple sequence repeats, 43 single-nucleotide polymorphisms, and 1 sequence-tagged site, for a total of 518 markers at 472 unique positions in 17 linkage groups. The linkage groups cover 1093.9 cM, with an average distance of 2.3 cM between loci. The average number of marker loci per linkage group was 27.8. The sex-linkage group was identified by exploiting X-linked and Y-specific markers. Our linkage map and the newly developed markers used to create it constitute an essential resource and a useful framework for future genetic analyses in BPH.

Cytosolic manganese superoxide dismutase genes from the white shrimp Litopenaeus vannamei are differentially expressed in response to lipopolysaccharides, white spot virus and during ontogeny

Manganese superoxide dismutase (MnSOD) is an antioxidant enzyme usually located in mitochondria. There are only a few examples of cytosolic MnSOD (cMnSOD). In the shrimp Litopenaeus vannamei, we have previously characterized three cMnSOD cDNAs and their differential tissue-specific expression. To obtain insights about their genomic organization, we characterized the three corresponding cMnSOD genes, named them cMnsod1, cMnsod2, and cMnsod3 and studied their specific expression during ontogeny, response to lipopolysaccharides (LPS) and white spot virus infection (WSSV) in hemocytes from shrimp. The first two genes contain five introns flanked by canonical 5'-GT-AG-3' intron splice-site junctions, while the third one is intron-less. We analyzed 995 nucleotides upstream cMnsod2, but no classical promoter sequences were found. The deduced products of the three cMnSOD genes differ in two amino acids and there are four silent changes. cMnsod3 expression is modulated by WSSV and cMnsod2 by LPS. cMnsod2 is expressed from eggs to post larval stage during ontogeny. This is the first report of crustacean cMnSOD multigenes that are differently induced during the defense response and ontogeny.

Shrimp invertebrate lysozyme i-lyz: gene structure, molecular model and response of c and i lysozymes to lipopolysaccharide (LPS)

The invertebrate lysozyme (i-lyz or destabilase) is present in shrimp. This protein may have a function as a peptidoglycan-breaking enzyme and as a peptidase. Shrimp is commonly infected with Vibrio sp., a Gram-negative bacteria, and it is known that the c-lyz (similar to chicken lysozyme) is active against these bacteria. To further understand the regulation of lysozymes, we determined the gene sequence and modeled the protein structure of i-lyz. In addition, the expression of i-lyz and c-lyz in response to lipopolysaccharide (LPS) was studied. The shrimp i-lyz gene is interrupted by two introns with canonical splice junctions. The expression of the shrimp i-lyz was transiently down-regulated after LPS injection followed by induction after 6 h in hepatopancreas. In contrast, c-lyz was up-regulated in hepatopancreas 4 h post-injection and slightly down-regulated in gills. The L. vannamei i-lyz does not contain the catalytic residues for muramidase (glycohydrolase) neither isopeptidase activities; however, it is known that the antibacterial activity does not solely rely on the enzymatic activity of the protein. The study of invertebrate lysozyme will increase our understanding of the regulatory process of the defense mechanisms.

Functional analysis of four processing products from multiple precursors encoded by a lebocin-related gene from Manduca sexta

Antimicrobial peptides (AMPs) are a crucial component of the natural immune system in insects. Five types of AMPs have been identified in the tobacco hornworm Manduca sexta, including attacin, cecropin, moricin, gloverin, and lebocin. Here we report the isolation of lebocin-related cDNA clones and antibacterial activity of their processed protein products. The 17 cDNA sequences are composed of a constant 5' end and a variable 3' region containing 3-16 copies of an 81-nucleotide repeat. The sequence of the corresponding gene isolated from a M. sexta genomic library and Southern blotting results indicated that the gene lacks introns and exists as a single copy in the genome. The genomic sequence contained 13 complete and one partial copy of the 81-nucleotide repeat. Northern blot analysis revealed multiple transcripts with major size differences. The mRNA level of M. sexta lebocin increased substantially in fat body after larvae had been injected with bacteria. The RXXR motifs in the protein sequences led us to postulate that the precursors are processed by an intracellular convertase to form four bioactive peptides. To test this hypothesis, we chemically synthesized the peptides and examined their antibacterial activity. Peptide 1 killed Gram-positive and Gram-negative bacteria. Peptide 2, similar in sequence to a Galleria mellonella AMP, did not affect the bacterial growth. Peptide 3 was inactive but peptide 3 with an extra Arg at the carboxyl terminus was active against Escherichia coli at a high minimum inhibitory concentration. Peptide 4, encoded by the 81-bp repeat, was inactive in the antibacterial tests. The hypothesis that posttranslational processing of the precursor proteins produces multiple bioactive peptides for defense purposes was validated by identification of peptides 1, 2, and 3 from larval hemolymph via liquid chromatography and tandem mass spectrometry. Comparison with the orthologs from other lepidopteran insects indicates that the same mechanism may be used to generate several functional products from a single precursor.

Chromosomal localization and copy number of 18S + 28S ribosomal RNA genes in evolutionarily diverse mosquitoes (Diptera, Culicidae)

In situ hybridization using 3H-labeled 18S and 28S ribosomal DNA (rDNA) probes from Aedes albopictus was performed on the mitotic chromosomes of 20 species of mosquitoes belonging to 8 genera of subfamilies Culicinae and Anophelinae. In all but one species examined, the rDNA family was localized to a single chromosome per haploid genome. Aedes triseriatus was the only exception, with the rDNA cistrons present on chromosome 1 and on chromosome 3. The ribosomal RNA genes were located on chromosome 1 in Ae. albopictus, Ae. aegypti, Ae. flavopictus, Ae. seatoi, A. polynesiensis, Ae. alcasidi, Ae. annandalei, Ae. mascarensis, Ae. hendersoni, Ae. atropalpus, Ae. epactius, Culex pipiens quinquefasciatus, Wyeomyia smithii, and Sabethes cyaneus; chromosome 2 in Ae. mediovittatus and Haemagogus equinus; chromosome 3 in Armigeres subalbatus and Tripteroides bambusa; and the heteromorphic X and Y chromosomes in Anopheles quadrimaculatus. The variation in the location of ribosomal RNA genes on the different chromosomes and at different positions on the chromosome arm among the mosquito species examined is suggestive of considerable chromosome repatterning through translocations and inversions in the karyotypic evolution of mosquitoes. Dot-blot hybridization was used to estimate copy number of rRNA genes; the copy number per haploid genome ranged from 39 +/- 3.27 in Sa. cyaneus to 1023 +/- 68.14 in Ae. flavopictus.

Organization of serpin gene-1 from Manduca sexta. Evolution of a family of alternate exons encoding the reactive site loop

Manduca sexta serpin gene-1 encodes a family of serpins whose amino acid sequences are identical in their amino-terminal 336 residues but variable in their carboxyl-terminal 39-46 residues, which includes the reactive site loop (Jiang, H., Wang, Y., and Kanost, M. R. (1994) J. Biol. Chem. 269, 55-58). Here, we report the gene's complete nucleotide sequence and exon-intron structure. A unique characteristic of this gene is its exon 9, which is present in 12 alternate forms between exons 8 and 10. Isolation and characterization of cDNA clones containing exons 9C, 9H, and 9I, which were not found previously, indicate that all 12 alternate forms of exon 9 can be utilized to generate 12 different serpins. The splicing pathway apparently allows inclusion of only one exon 9 per molecule of mature serpin-1 mRNA. Analysis of exon-intron border sequences reveals unique features that may be involved in regulation of RNA splicing. The exon 9 region has apparently evolved through rounds of exon duplication and sequence divergence. The exons near the center of the region may have evolved recently, whereas the outermost exons are the most ancient. Exons 9G and 9H were duplicated as a pair from exons 9E and 9F, an event that may have occurred more than once in the history of this gene.

Primary structure of ribosomal proteins S3 and S7 from Manduca sexta

We have isolated from Manduca sexta full-length cDNAs encoding proteins homologous to human ribosomal proteins S3 and S7. These are the first ribosomal protein sequences obtained from non-Dipteran insects. M. sexta ribosomal protein S3 has a molecular mass of 26,715 Da. Ribosomal protein S7 has a mass 21,870 Da. Both are basic proteins, with abundant Lys and Arg residues that may interact with ribosomal RNA in the ribosome. Southern blot hybridization suggests the presence of single genes for both ribosomal proteins in the M. sexta genome. Alignments with other S3 and S7 sequences available In the database indicate regions of the ribosomal proteins that have been the most highly conserved in evolution and may point to important functional regions in the proteins. Ribosomal protein S3 appears to be more highly conserved then ribosomal protein S7. This may be due to greater constraints on the structure of S3 because of its dual functions in translation as a ribosomal protein and in DNA repair in the nucleus.

Sex-specific and hormone-controlled expression of a vitellogenin-encoding gene in the gypsy moth

Microvitellogenin and vitellogenin cDNA from Manduca sexta (tobacco hornworm) were tested for use as molecular probes to investigate the expression of genes coding for vitellogenins in Spodoptera frugiperda (fall armyworm) and Lymantria dispar (gypsy moth). Cross-hybridization was not observed between the M. sexta cDNAs and S. frugiperda DNA and mRNA. Vitellogenin cDNA from M. sexta did not hybridize to L. dispar DNA or mRNA. However, the 834 bp microvitellogenin cDNA from M. sexta hybridized to an approximately 850 bp transcript in L. dispar mRNA. A 2.5 kb cDNA clone, pz64, was isolated from late last instar larvae of female L. dispar by differential screening. This clone has 38% amino acid sequence (deduced) and 55% nucleic acid sequence similarities with the 3'-end of high molecular weight vitellogenin in Bombyx mori (silkworm). When used as a probe in northern analysis of L. dispar mRNA, this cDNA hybridized to a 5.3 kb transcript in female last instar larvae, pupae, and adults, but not to male last instar larvae and adults. This cDNA did not hybridize to mRNA from M. sexta or S. frugiperda. Expression of the 5.3 kb vitellogenin transcript hybridizing to the 2.5 kb cDNA clone was suppressed in 5-day-old last instar larvae of female L. dispar treated on day 2 with doses of the juvenile hormone analog, methoprene, greater than 10 nmol. Apparently, the high in vivo titer of juvenile hormone during the first 2 days of the last instar represses the transcription of vitellogenin mRNA.

Organization and expression of the hemolin gene, a member of the immunoglobulin superfamily in an insect, Manduca sexta

Hemolin is a protein from the immunoglobulin (Ig) superfamily found so far in the haemolymph of two lepidopteran insect species, Hyalophora cecropia and Manduca sexta. Injection of bacterial into these insects induces the expression of hemolin. We have isolated the hemolin gene from M. sexta and determined its DNA sequence and transcription start site. The hemolin gene is 3127 bp long and contains six exons. The only correspondence between exons and the four Ig domains of hemolin is in domain 4, which is encoded by exon 6. Southern blot analysis indicates that there is one copy of the hemolin gene in the M. sexta genome. Analysis of the 5'-flanking sequence of the hemolin gene resulted in identification of potential regulatory sequences. Hemolin mRNA accumulated in haemocytes, as well as fat body, in response to injection of larvae with bacteria. Hemolin was detected by immunocytochemistry in only one of the five morphological haemocyte types in M. sexta, the granular cells.

Expression of the gene encoding an insulin-related peptide in Locusta (Insecta, Orthoptera). Evidence for alternative promoter usage

A peptide with significant sequence similarity to mammalian insulins, Locusta insulin-related peptide (LIRP) has recently been isolated from neurohaemal lobes of Locusta migratoria and the corresponding cDNA has been cloned. We report here the cloning of the LIRP gene and we show that this gene is present as a single copy/haploid genome. The organization of this gene is similar to that of mammalian insulin genes. There are at least two LIRP transcripts, LIRP T1 and LIRP T2, differing in their 5' untranslated regions and in the 5' end of the coding region resulting in an additional ATG present in LIRP T2. The two transcripts are differentially expressed in Locusta; whereas LIRP T1 is only expressed in neurosecretory cells of the brain, LIRP T2 is present at low levels in all tissues. Our data indicate that the LIRP gene has at least two promoters, the alternative usage of which could account for a differential regulation of expression of LIRP in the neurosecretory cells and in various peripheral tissues.

Polymorphic cDNAs encode for the methionine-rich storage protein from Manduca sexta

By cDNA cloning and sequencing we have shown that Manduca sexta larvae produce three very closely related methionine-rich storage proteins, MMR1, MMR2 and MMR3. Out of 2256 nucleotides in the coding region, the cDNAs differ by at most twenty-one bases and this leads to a single amino acid difference between MMR1 and MMR2, and between MMR2 and MMR3, whereas MMR1 and MMR3 differ by two amino acids. Using both distance and parsimony methods, similarities between the M. sexta and Bombyx mori methionine-rich and arylphorin storage proteins were examined. Homologous proteins from the two species tend to be more closely related than are the two classes of storage proteins in a single species.

Cloning and sequencing of the blood meal-induced late trypsin gene from the mosquito Aedes aegypti and characterization of the upstream regulatory region

A 4.1 kb genomic clone of the late trypsin gene from the mosquito Aedes aegypti was isolated, mapped and subcloned. A 1.6 kb subclone, corresponding to 1.1 kb of upstream regulatory region and 0.5 kb of coding region, was sequenced. The gene has no introns within the coding region. The 5' end of the mature mRNA was mapped using primer extension analysis. A TATA box consensus sequence (TATAAA) was found at position -31 from the 5' end of the mature mRNA. A cluster of five repeat sequences homologous to the yeast GCN4 DNA binding site was found within 200 nucleotides upstream of the cap site. GCN4 is required for derepression mediated control of general amino acid biosynthesis in response to amino acid starvation in yeast. It activates the transcription of at least twenty different genes coding for enzymes involved in amino acid biosynthesis. The presence of this cluster of consensus sequences suggests that a protein similar to GCN4 might regulate expression of the late trypsin gene in the mosquito. Southern blot analysis of genomic DNA indicates that late trypsin is a single copy gene.

Cloning and 5' end nucleotide sequences of two juvenile hormone-inducible vitellogenin genes of the African migratory locust

Screening of lambda libraries prepared with locust (Locusta migratoria) genomic DNA yielded overlapping clones containing two complete vitellogenin genes, designated A and B, along with extensive 3'- and 5'-flanking sequences. Genes A and B are about 12 kb and 10.5 kb long, respectively, and both hybridize on Northern blots with 6300-nucleotide RNAs previously identified as vitellogenin mRNAs. Each gene contains a large intron near the 5' end and must also contain other introns. Repetitive "Lm1 elements," similar to the human Alu repetitive DNA elements, and other repeated sequences occur within the large intron and in the 3'- and 5'-flanking regions of each gene. Southern blots showed no cross-hybridization between the major portions of mRNA-coding sequences of genes A and B. DNA sequences have been determined for the 5' terminal exons and flanking regions of both genes. Both genes contain short (56-58 nucleotide) 5' leader exons, which, unlike the rest of the coding region, are highly conserved in sequence (87% identical) and code for amino acids that resemble the amino-terminal sequences of vertebrate vitellogenins. The upstream 5'-flanking sequences of the two genes contain several short stretches of similarity that may be involved in juvenile hormone regulated expression.

Characterization of regions of the Caenorhabditis elegans X chromosome containing vitellogenin genes

Caenorhabditis elegans contains a family of vitellogenin genes consisting of five closely related genes (vit-1 to vit-5) coding for 186,000 Mr yolk proteins, and one distantly related gene (vit-6) encoding a 200,000 Mr precursor to two smaller yolk proteins. We demonstrate here that, although vit-1 to vit-5 are not clustered (with the exception of vit-3 and vit-4), they are all on the X chromosome. In contrast, vit-6 is autosomal. The genes are strictly regulated during development: they are activated in the intestine of the hermaphrodite worm, following the last larval molt. In order to determine whether the vit genes are contained within chromosomal domains of similarly regulated genes, we have used the chromosomal "walking" technique to isolate 55,000 to 60,000 base-pairs of DNA surrounding each of the X-linked genes and determined the developmental specificity of nearby genes. In the total of 235,400 base-pairs of cloned DNA, seven genes, in addition to the five vit genes, were found. The average gene spacing is approximately 20,000 base-pairs per gene but is highly variable, ranging from less than 2000 to more than 38,000 base-pairs. The seven newly identified genes, called uvt-1 to uvt-7, specify RNAs varying in size from 500 to 2700 bases. With the exception of uvt-4, all of the genes are developmentally regulated; but the patterns of regulation are quite variable, and all are different from the vitellogenin genes. The vit genes, therefore, are not contained within co-regulated chromosomal domains. We also searched for the presence of repetitive DNA, but only four such sequences were found.

Campoletis sonorensis Endoparasitic Wasps Contain Forms of C. sonorensis Virus DNA Suggestive of Integrated and Extrachromosomal Polydnavirus DNAs

Campoletis sonorensis virus (CsV) ( Polydnaviridae ) previously was detected only in the calyx epithelial cells and lumen of the oviducts from female C. sonorensis (Ichneumonidae) endoparasitic wasps (Norton et al., Cell Tissue Res. 162:195-208, 1975). Using dot-blot hybridizations, we detected low amounts of CsV DNA in male and female wasp head and thorax tissues and in male abdominal tissues. Low amounts of extrachromosomal viral DNA were detected in Southern blots of undigested male wasp DNA and in male DNA purified by isopycnic centrifugation. High-molecular-weight male wasp DNA digested with any of several restriction endonucleases and hybridized with cloned viral DNAs from CsV superhelices B and Q under stringent conditions contained CsV-specific DNA fragments that differed significantly in size and number from the hybridizing fragments detected in comparably digested viral DNA. Identical offsize restriction fragments were detected in digested female head and thorax DNA. These data suggest that at least CsV DNAs B and Q are integrated in C. sonorensis cellular DNA and that the virus may be transmitted through the germline.

An ubiquitous interspersed DNA sequence family in an insect

The genome of the African migratory locust, Locusta migratoria (Class Insecta, Order Orthoptera, Family Acrididae) contains an interspersed DNA sequence family, designated the Lm1 family. This family consists of short (approximately 195-bp), widely dispersed, highly reiterated (approximately 6 X 10(5) copies/haploid genome) repeat units, which account for about 2% of the locust genome. Lm1 repeats contain regions that closely resemble internal promoter sequences for RNA polymerase III, and they are structurally very similar to RNA polymerase III templates. Family members are flanked by short direct repeats, and are closely linked to structural genes. These features are reminiscent of the Alu family of man and other repeat sequence families, until now documented only in higher vertebrates.