Balbiani ring 6 gene in Chironomus tentans: a diverged member of the Balbiani ring gene family

We describe the internal organization of a large part of the Balbiani ring (BR) 6 gene in Chironomus tentans. The BR6 gene is a diverged member of the BR gene family. It displays the characteristic hierarchic organization of repetitive sequences, but in the constant region of the repeat units the overall sequence homology is only 49% when compared to other BR genes. All four cysteines are among the few amino acids conserved in the constant region. In the subrepeat region the central part is built from a repeated tripeptide, Pro-Glu--Arg+. A similar charge distribution adjacent to prolines is found in other BR gene subrepeat regions, most pronouncedly in the BR2-encoded protein. These conserved properties of the BR gene products are relevant to the issue how the various BR gene products interact to form a supramolecular structure, the larval tube, and how functional demands influence the evolution of a eucaryotic gene family.     

The basic repeat unit of a Chironomus Balbiani ring gene.

A clone derived from the Balbiani ring b (BRb) gene of Chironomus thummi has been used to study the internal organization of that gene. Much of the gene consists of approximately 80 copies of a ca. 300 bp repeat unit, which are tandemly organized. The BRb clone contains a major part of that unit (242 bp). Sequence analysis shows that approximately 60% of the unit corresponds to short, tandemly organized subsequences, which encode peptides 8 to 11 residues long. In turn, each subsequence consists of even shorter internal repeats, corresponding to a tripeptide (consensus Proline. Serine. Lysine.). The remainder of the ca. 300 bp unit probably does not have obvious repetitive substructure.     

Both upstream and downstream intergenic regions are critical for the mob as tumor suppressor gene activity in Drosophila

The Drosophila mats gene plays a critical role in growth control. Using molecular genetic approaches we investigated how mats is regulated in development. A 2236-bp genomic sequence that contains entire mats including upstream and downstream intergenic regions can rescue mats mutant phenotypes, indicating that regulatory elements necessary for proper mats expression are mostly retained. However, constructs without the upstream or downstream intergenic region failed to rescue mats mutants, demonstrating the functional importance of these sequences. Moreover, mats expression is reduced in mats^e17, a mats allele with over one-third of the downstream intergenic region deleted. Consistent with a model that the downstream intergenic region is critical for mats activity, this sequence contains evolutionarily conserved elements and has enhancer activities.     

The Balbiani ring and the polytene chromosomes of Drosophila bicornuta.

A study of the BR1 and of the most prominent puffs during larval development and after in vitro ecdysterone treatment, as well as of the banding pattern and inverted tandem chromosomal duplications of the salivary gland chromosomes of Drosophila bicornuta, is presented in this report. These data are compared and discussed with those of D. auraria and D. serrata, two other montium species.     

The intranuclear movement of Balbiani ring premessenger ribonucleoprotein particles.

Specific premessenger ribonucleoprotein (pre-mRNP) particles, the Balbiani ring (BR) granules in the salivary glands of the dipteran Chironomus tentans, can be visualized in the electron microscope when they assemble on the genes, move through nucleoplasm, and bind to and translocate through the nuclear pores. As shown by BrUTP labeling and immunoelectron microscopy, newly synthesized BR RNP particles, released from the BR genes, appear early in all nucleoplasmic regions of the cell nucleus and they saturate the nucleoplasmic pool of BR particles after 2 h of labelling. It is concluded that within the nucleus the BR particles move randomly. Furthermore, estimates of minimum diffusion coefficients for the BR particles are compatible with the view that the particles diffuse freely in the interchromosomal space, although it is not excluded that the random movement could be slightly retarded. Once the particles get bound to the nuclear pore complexes, they seem committed to translocation through the nuclear pores.     

Conserved and variable repeat structures in the Balbiani ring gene family in Chironomus tentans

Summary The four Balbiani ring (BR) genes, BR1, BR2.1, BR2.2, and BR6 in the midge Chironomus tentans constitute a gene family encoding secretory proteins with molecular weights of approximately 10⁶ daltons. The major part of each gene is known to consist of tandemly organized composite repeat units resulting in a hierarchic repeat arrangement.Here, we present the sequence organization of the 5 part of the BR2.2 and BR6 genes and describe the entire transcribed part of the two genes. As the BR1 and BR2.1 genes were also fully characterized recently, this allows the comparison of all genes in the BR gene family.All four genes share the same exon-intron structure and have evolved by gene duplications starting from a common ancestor, having the same overall organization as the BR genes of today.The genes encode proteins that have an approximately 10,000-amino acid residue extended central domain, flanked by a highly charged, 200-residue amino-terminal domain and a globular 110-residue carboxy-terminal domain. Exons 1–3 and the beginning of exon 4 encode the amino-terminal domain, which throughout contains many regions built from short repeats. These repeats are often degenerate as to repeat unit and sequence and are present in different numbers between the genes. In several instances these repeat structures, however, are conserved at the protein level where they form positively or negatively charged regions.Each BR gene has a 26–38-kb-long exon 4, which consists of an array of 125–150 repeat units and encodes the central domain. The number of repeat units appears to be largely preserved by selection and all repeat units in the array are very efficiently homogenized. Occasionally variant repeats have been introduced, presumably from another BR gene by gene conversion, and spread within the array.Introns 1–3 at the 5 end of the genes have diverged extensively in sequence and length between the genes. In contrast, intron 4 at the 3 end is virtually identical between three of the four genes, suggesting that gene conversion homogenizes the 3 ends of the genes, but not the 5 ends. Offprint requests to: L. Wieslander     

Abrupt evolutionary change in the Balbiani ring gene family in two sibling species ofChironomus

Summary We have investigated interspecific divergence in a eucaryotic gene family, the Balbiani ring genes of the dipteran genusChironomus. In general, our data show thatC. pallidivittatus andC. tentans possess virtually identical Balbiani ring gene sequences, whereasC. thummi represents a more distantly related member of the genus. These results are consistent with phylogenetic relationships for the three species based on polytene chromosome banding patterns. However, one Balbiani ring gene sequence displays an evolutionarily anomalous behavior. A 16-kilobase-pair Balbiani ring gene 1 sequence inC. pallidivittatus that we show to be transcribed is absent in the sibling speciesC. tentans. We propose that this sequence was deleted inC. tentans after divergence of the species. Considering the importance of Balbiani ring genes for feeding and protection of theChironomus larvae, we suggest that the pronounced interspecific genetic difference contributes to a difference in ecological niche between the two sympatrically distributed species.     

Dependence of Balbiani ring puffing on protein synthesis

The possible dependence of puffing of the Balbiani rings (BRs) on the protein synthesis has been investigated by studying the response of these structures to protein synthesis inhibition induced by cycloheximide and anisomycin. When larvae of Chironomus thummi belonging to middle IV instar (BR1 repressed, BR2 expanded) are subjected to short treatment (3–6 h) with these drugs, BR1 and BR2 puffing states remain essentially unaffected. But when the same treatments are applied to galactose-pretreated larvae (BR1 expanded, BR2 repressed), selective reactivation of the collapsed BR2 occurs. These observations suggest that maintenance of a given puffing state can be dependent, to a variable extent, on the supply of newly synthesized proteins. In particular, selective re-expansion of galactose-repressed BR2 induced by the drugs seem to indicate the existence of repressor-like factor whose activity would be triggered by the galactose treatment.     

Demonstration of Balbiani ring RNA sequences in polysomes

A polysome extract from salivary glands of C. tentans was sedimented in a 15-60% sucrose gradient. Fractions from the heavy polysome region (1,000-2,000S) and fractions from the light polysome region (200- 1,000S) were pooled separately, and the long-term labeled RNA was released by Sarkosyl/pronase and analysed by in situ hybridization. The results showed that BR 1 and BR 2 sequences were present in the heavy and the light polysome regions of the sucrose gradient. From control experiments with EDTA-treated extracts, it was concluded that most of the recorded BR 1 and BR 2 sequences were in fact located in polysomes. The finding that BR products enter polysomes suggests that they act as messenger RNA molecules. This study therefore strongly supports the concept that chromosome puffs represent active genes.     

The Chironomus tentans genome sequence and the organization of the Balbiani ring genes

Background

The polytene nuclei of the dipteran Chironomus tentans (Ch. tentans) with their Balbiani ring (BR) genes constitute an exceptional model system for studies of the expression of endogenous eukaryotic genes. Here, we report the first draft genome of Ch. tentans and characterize its gene expression machineries and genomic architecture of the BR genes.

Results

The genome of Ch. tentans is approximately 200 Mb in size, and has a low GC content (31%) and a low repeat fraction (15%) compared to other Dipteran species. Phylogenetic inference revealed that Ch. tentans is a sister clade to mosquitoes, with a split 150–250 million years ago. To characterize the Ch. tentans gene expression machineries, we identified potential orthologus sequences to more than 600 Drosophila melanogaster (D. melanogaster) proteins involved in the expression of protein-coding genes. We report novel data on the organization of the BR gene loci, including a novel putative BR gene, and we present a model for the organization of chromatin bundles in the BR2 puff based on genic and intergenic in situ hybridizations.

Conclusions

We show that the molecular machineries operating in gene expression are largely conserved between Ch. tentans and D. melanogaster, and we provide enhanced insight into the organization and expression of the BR genes. Our data strengthen the generality of the BR genes as a unique model system and provide essential background for in-depth studies of the biogenesis of messenger ribonucleoprotein complexes.

Electronic supplementary material

The online version of this article (doi:10.1186/1471-2164-15-819) contains supplementary material, which is available to authorized users.