Cucurbits depicted in Byzantine mosaics from Israel, 350–600 ce

Background and Aims

Thousands of floor mosaics were produced in lands across the Roman and Byzantine empires. Some mosaics contain depictions of agricultural produce, potentially providing useful information concerning the contemporary presence and popularity of crop plants in a particular geographical region. Hundreds of floor mosaics produced in Israel during the Byzantine period have survived. The objective of the present work was to search these mosaics for Cucurbitaceae in order to obtain a more complete picture of cucurbit crop history in the eastern Mediterranean region.

Results and Conclusions

Twenty-three mosaics dating from 350–600 ce were found that had images positively identifiable as cucurbits. The morphological diversity of the cucurbit fruits in the mosaics of Israel is greater than that appearing in mosaics from any other Roman or Byzantine provincial area. The depicted fruits vary in shape from oblate to extremely long, and some are furrowed, others are striped and others lack definite markings. The cucurbit taxa depicted in the mosaics are Cucumis melo (melon), Citrullus lanatus (watermelon), Luffa aegyptiaca (sponge gourd) and Lagenaria siceraria (bottle gourd). Cucumis melo is the most frequently found taxon in the mosaics and is represented by round dessert melons and long snake melons. Fruits of at least two cultivars of snake melons and of watermelons are represented. To our knowledge, images of sponge gourds have not been found in Roman and Byzantine mosaics elsewhere. Indeed, the mosaics of Israel contain what are probably the oldest depictions of Luffa aegyptiaca in Mediterranean lands. Sponge gourds are depicted often, in 11 of the mosaics at eight localities, and the images include both mature fruits, which are useful for cleaning and washing, and immature fruits, which are edible. Only one mosaic has images positively identifiable as of bottle gourds, and these were round–pyriform and probably used as vessels.     

Signs from a green desert: a preliminary examination of the archaeobotanical remains from a Byzantine dovecote near Shivta, Israel

This paper presents a preliminary examination of archaeobotanical material from pigeon dung samples obtained from Byzantine period destruction levels of a dovecote near the site of Shivta, Israel. Such pigeon dung was a valuable fertilizer in antiquity and would not have been abandoned without a reason. The plant remains from the dung provide direct evidence of pigeon diet and the local environment during the Byzantine period. Eleven plant taxa, represented by either seeds and/or plant parts (cereal chaff material), including five wild taxa, one legume, four fruit/nut taxa and several unidentified seed fragments were recovered. The most common seeds found were from weeds of the genus Thymelaea sp., and Ficus (fig). The finds indicate that the birds in the dovecote consumed a mixed diet of wild seeds including Thymelaea sp. and Fumaria sp. (fumitory), and small fruits of Vitis (grape), Ficus (fig), Olea (olive) and Phoenix (date). The sample analyzed also included Rumex (dock), Carex (sedge) and Androsace which may not have come from the feed. Apparently the pigeons were free to forage in the desert, the fallowed fields and refuse piles or/and were intentionally fed agricultural by-products including wild plants.     

Did the historical range of the European bison (<Emphasis Type="Italic">Bison bonasus</Emphasis> L.) extend further south?—a new finding from the Yenikapı Metro and Marmaray excavation,Turkey

The origin of the European bison (Bison bonasus, Linnaeus, 1758) has been widely discussed and investigated in recent years. The species had a wide historic geographic distribution throughout the European continent during the middle and late Holocene, ranging from France in the west to the Caucasus in the east. However, archaeological evidence is needed to resolve the southern extent of the European bison distribution. We discovered one bison skull fragment during archaeological excavations in 2008 in the area of Yenikap? Metro and Marmaray (Turkey). Radiocarbon dating indicated the skull was deposited during the Byzantine period (seventh to eighth century AD). Mitochondrial genome analyses provided clear evidence that the skull was from a European bison. This is the first unambiguous evidence of the presence of this species in southeastern Europe during Byzantine times, which validates the historical written records of a potentially wider range of the European bison in historical times.     

啮齿动物捕食压力下生境类型和覆盖处理对辽东栎种子命运的影响

在六盘山区的退化辽东栎灌丛和辽东栎次生林 (以下分别称“灌丛样地“和“次生林样地”),研究了群落生境和清除凋落物、凋落物覆盖及土壤覆盖等处理对啮齿动物取食和搬运/贮藏辽东栎种子的影响。结果表明：(1) 凋落物和土壤覆盖处理在种子释放的前期阶段有利于种子留存,但释放40天后,种子在释放点的最终留存率在灌丛样地显著高于次生林样地 (Z = -2.333, P = 0.020)。灌丛样地的自然状态的种子最终留存率显著高于凋落物覆盖处理 (Z = -0.674,P = 0.05),但其它处理间无显著差异;次生林样地的凋落物覆盖和清除凋落物处理种子的最终留存率为0%,自然状态和土壤覆盖处理均不足1%,各处理间无显著差异。(2) 种子被啮齿动物的就地取食率在不同群落生境间差异显著 (Z = -2.333,P = 0.020);在灌丛样地,凋落物覆盖处理种子被啮齿动物就地取食率最高 (45.56%),而次生林样地的土壤覆盖处理最高 (64.81%),种子被啮齿动物就地取食率在灌丛样地和次生林样地均为清除凋落物处理最低 (分别为23.70%和40.00%);生境类型和覆盖处理对种子搬运后的取食率均无显著影响。(3) 次生林样地种子被啮齿动物搬运后的埋藏率显著高于灌丛样地 (Z = -2.88,P = 0.004);在灌丛样地,土壤覆盖处理种子搬运后的埋藏率最高仅5.56%,而在次生林样地,清除凋落物处理最高达9.26%。(4) 种子被啮齿动物搬运后取食的距离在灌丛样地和次生林样地分别为3.01 m和2.13 m,差异显著 (Z = -2.080,P = 0.038),而种子搬运后的埋藏距离前者小于后者 (分别为1.35 m和2.10 m),两者间差异不显著。     

Method to integrate multiple plasmids into the mycobacterial chromosome

In order to create a system in which two independent plasmids can be integrated into a mycobacterial chromosome, a mycobacterial plasmid was constructed containing the phage attachment site attP from the mycobacteriophage L5 genome and additionally containing the bacterial attachment site, attB. This plasmid will integrate into the mycobacterial chromosome via recombination of the plasmid-borne attP site with the chromosomal attB site in the presence of a mycobacterial vector carrying the L5 integrase (int) gene. The integrated plasmid has a plasmid-borne attB site that is preserved and will accept the integration of additional mycobacterial plasmids containing the L5 attP site. This system should be useful in the construction of novel mycobacterial strains. In particular, this system provides a method by which several recombinant antigens or reporter constructs can be sequentially inserted into a mycobacterial strain and subsequently tested.     

Role of the O-phosphoserine clusters in the interaction of the bovine milk αs1-, β-, κ-caseins and the PP3 component with immobilized iron (III) ions

α_s1- and β-Caseins have a sequence cluster -Ser(P)-Ser(P)-Ser(P)-Glu-Glu- which is not present in κ-casein and the whey PP3 component. The affinity of these phosphoproteins for the iron(III)-iminodiacetic acid (IDA) complex immobilized on Sepharose was studied a a function of pH, urea concetnration, calcium ion concentration, enzymatic dephosphorylation and temperature. The affinity of the three polyphosphorylated proteins (α_s1- and β-caseins, PP3) was similar. The sequence cluster was not a specific recognition pattern for the iron(III) ion. These three proteins presented a site of high affinity and a site of weak affinity. κ-Casein, which had only one Ser(P) residue, presented only the site of weak affinity. Their primary site which was absent after dephosphorylation or calcium ion addition required the presence of at least two Ser(P) residues close in space. Their secondary site was sensitive to the presence of urea. It was sensitive to pH variation for PP3 and κ-casein. The study of the affinity of a few free amino acids towards iron(III)-IDA showed that the secondary site involved tryptophan and tyrosine residues for α_s1- and β-caseins, histidine residues for PP3 and cysteine residues for κ-casein.     

The Transfer Origin for Bacteroides Mobilizable Transposon Tn4555 Is Related to a Plasmid Family from Gram-Positive Bacteria

Conjugal transfer of Bacteroides mobilizable transposon Tn4555 was examined with an Escherichia coli-based assay system. It was shown that mobilization required the cis-acting oriT_Tn region and that the Tn4555 mobA_Tn gene and RK231 must be present in trans. With alkaline agarose gel electrophoresis and filter blot hybridizations, it was shown that at oriT_Tn there was a site- and strand-specific cleavage event that was dependent on mobA_Tn. The 5′ end of this cleavage site was mapped by primer extension, and the nucleotide sequence surrounding the site had homology to a family of oriT nick sites found in mobilizable plasmids of gram-positive bacteria. Removal of the nick site by deletion of 18 bp surrounding the site resulted in a significant loss of transfer activity.     

霸王和木本猪毛菜在遮风和不遮风环境下的表型特征差异

植物的表型特征是对环境适应的结果。霸王(Zygophyllum xanthoxylum)和木本猪毛菜(Salsola arbuscula)是新疆达坂城大风区的主要植物,也是该区植被恢复潜在的先锋植物。在达坂城柴窝堡,通过野外盆栽实验,对霸王和木本猪毛菜持续吹风和遮风处理90 d,定量分析这两种植物在遮风和不遮风环境下其地上部分的生长和空间构型差异。结果表明:(1)与遮风下的相比,自然大风中的霸王和木本猪毛菜其株高、叶长度、单叶面积、单株叶面积均减小,顺风向基径均增大,尤其是霸王,其株高减小了一半多。木本猪毛菜的叶片数量增多,叶宽增大,霸王的叶片数量减少、叶宽度、叶柄长度、叶柄直径均减小;(2)遮风下的木本猪毛菜其植冠在四个方向均匀生长,而自然大风中的植冠空间构型在迎风面和背风面出现明显的不对称,一级分枝数增多,主茎弯曲角度、枝倾角、叶倾角均减小。霸王没有出现一级分枝,主茎弯曲角度减小,叶倾角增大。可见,霸王主要通过减小地上部分各器官来响应大风环境,而木本猪毛菜除减小各器官之外,还减小各器官之间的角度,形成更紧凑的构型,以此适应大风环境。     

Prevalence and Genotype Allocation of Pathogenic Leptospira Species in Small Mammals from Various Habitat Types in Germany

Small mammals serve as most important reservoirs for Leptospira spp., the causative agents of Leptospirosis, which is one of the most neglected and widespread zoonotic diseases worldwide. The knowledge about Leptospira spp. occurring in small mammals from Germany is scarce. Thus, this study’s objectives were to investigate the occurrence of Leptospira spp. and the inherent sequence types in small mammals from three different study sites: a forest in southern Germany (site B1); a National Park in south-eastern Germany (site B2) and a renaturalised area, in eastern Germany (site S) where small mammals were captured. DNA was extracted from kidneys of small mammals and tested for Leptospira spp. by real-time PCR. Positive samples were further analysed by duplex and conventional PCRs. For 14 positive samples, multi locus sequence typing (MLST) was performed. Altogether, 1213 small mammals were captured: 216 at site B1, 456 at site B2 and 541 at site S belonging to following species: Sorex (S.) araneus, S. coronatus, Apodemus (A.) flavicollis, Myodes glareolus, Microtus (Mi.) arvalis, Crocidura russula, Arvicola terrestris, A. agrarius, Mustela nivalis, Talpa europaea, and Mi. agrestis. DNA of Leptospira spp. was detected in 6% of all small mammals. At site B1, 25 small mammals (11.6%), at site B2, 15 small mammals (3.3%) and at site S, 33 small mammals (6.1%) were positive for Leptospira spp. Overall, 54 of the positive samples were further determined as L. kirschneri, nine as L. interrogans and four as L. borgpetersenii while five real-time PCR-positive samples could not be further determined by conventional PCR. MLST results revealed focal occurrence of L. interrogans and L. kirschneri sequence type (ST) 117 while L. kirschneri ST 110 was present in small mammals at all three sites. Further, this study provides evidence for a particular host association of L. borgpetersenii to mice of the genus Apodemus.     

Integrative recombination of Lactobacillus delbrueckii bacteriophage mv4: functional analysis of the reaction and structure of the attP site

The integrase of the temperate bacteriophage mv4 catalyzes site-specific recombination between the phage attP site and the attB site of the host during lysogenization of Lactobacillus delbrueckii subsp. bulgaricus. The mv4 integrase also functions in a wide variety of gram-positive bacteria and in Escherichia coli. In this report, in vitro and in vivo recombination assays were developed and the integrase was purified in order to study in greater detail the mv4 attP?×?attB recombination event. In a cell-free extract of E. coli at 42°?C, the mv4 integrase promotes efficient in vitro recombination between a supercoiled attP-containing plasmid and a linear attB fragment. The integrase, which was purified to apparent homogeneity, showed no absolute requirement for accessory factors, unlike the majority of the lambda Int family of recombinases. Deletion derivatives of the attP site were constructed and tested for recombination with the attB site in vitro. A 234-bp DNA fragment containing five scattered putative mv4 Int-binding sites was sufficient for function of the attP site. In contrast to the right arm of attP, most of the left arm could be deleted without drastically reducing the recombination efficiency. In vivo in E. coli, mv4 Int catalyzed recombination in trans between attP and attB sites present on two separate plasmids. This property was used to confirm in vivo the results of the deletion analysis of the attP site performed in vitro.     

Investigation of diachronic dietary patterns on the islands of Ibiza and Formentera, Spain: Evidence from sulfur stable isotope ratio analysis

We present sulfur isotope ratio measurements of bone collagen from animals (n = 75) and humans (n = 120) from five sites dating to four chronological periods (Chalcolithic, Punic, Late Antiquity‐Early Byzantine, and Islamic) from the Balearic Islands of Ibiza and Formentera, Spain. This study is a follow up to previously published δ¹³C and δ¹⁵N values by [Fuller et al.: Am J Phys Anthropol 143 (2010) 512–522] and focuses on using δ³⁴S values to better understand the dietary patterns of these populations through time and to possibly identify immigrants to these islands. The range of δ³⁴S values (10.5–17.8‰) observed for the animals was relatively broad, which suggests that a significant sea spray effect has added marine sulfates to the soils of Formentera and Ibiza. The mean δ³⁴S values of the different human populations were found to be: Chalcolithic (16.5 ± 1.4‰), Punic rural (13.6 ± 1.7‰), Punic urban (12.9 ± 1.8‰), Late Antiquity‐Early Byzantine (12.3 ± 2.1‰), and Islamic (9.1 ± 2.7‰). These human δ³⁴S results are similar to the animal data, a finding that supports the notion that there was little marine protein consumption by these societies and that the diet was mainly based on terrestrial resources. During the Punic and Late Antiquity‐Early Byzantine periods the δ³⁴S values were used to identify individuals in the population who likely were not born or raised on the islands. In addition, 18 of the 20 individuals analyzed from the Islamic period have δ³⁴S values that indicate that they were immigrants to Ibiza who died before acquiring the new local sulfur isotopic signature. Am J Phys Anthropol 2012. © 2012 Wiley Periodicals, Inc.     

Usefulness of tissue nitrogen content and macroalgal community structure as indicators of water eutrophication

We tested the hypothesis that the community structure and biochemical composition of macroalgae reflect the degree of nutrient concentrations in the water column. Benthic community structure and tissue nitrogen (N) content of macroalgae on intertidal rocky shores at three sites were investigated in relation to sewage effluents on Mireuk Island, Tongyeong city, on the southern coast of Korea. Ulva australis clearly dominated at site 1, which was close to a sewage treatment plant, where higher dissolved inorganic N and dissolved inorganic phosphate concentrations were observed. U. australis-dominated communities also appeared at site 2 (intermediate levels of nutrient enrichment). The macroalgal assemblage at site 3 (unimpacted site) was significantly different from those at sites 1 and 2. Five species (U. australis, Sargassum fusiforme, Grateloupia elliptica, Gelidium amansii, and Sargassum horneri) were dominant at site 3, representing 87 % of the total coverage throughout the study period. Species richness (d), evenness (J'), and diversity index (H') were highest at site 3, intermediate at site 2, and lowest at site 1, showing a negative relationship with nutrient levels. These results indicate that macroalgal community structure can be used as a bioindicator in water quality assessment. The tissue N content of green and red algae was responsive to nutrient availability, while the tissue N content of brown algae was relatively unchanged among the sites. This suggests that tissue N content as a bioindicator for detecting the influence of sewage effluent should be considered to reflect the N storage capacity of macroalgae.     

The productivity and composition of mangrove forests,Laguna de Términos,Mexico

The composition and productivity of two mangrove sites surrounding the Laguna de Términos, Mexico, were studied from March 1979 to January 1984. Measurements were made of the tree composition, above-ground woody biomass changes, and litterfall production at a high-salinity fringing site and a low-salinity riverine site. Rhizophora mangle L. was the dominant tree at the fringing site, but occurred only at the water's edge at the riverine site. Avicennia germinans L. dominated the inland area of the riverine site. Laguncularia racemosa Gaertn. f. had a more even distribution from shore to inland and from site to site. Average diameter at breast height (DBH) was greater at the riverine site for each of the three species; however, tree density (trees > 2.5 cm DBH) was more than twice as high at the fringing site (7510 ha⁻¹) than at the riverine site (3360 ha⁻¹). Wood production (1206 g m⁻² year⁻¹ vs. 772 g m⁻² year⁻¹) and litterfall (1252 g m⁻² year⁻¹ vs. 835 g m⁻²) were higher at the riverine site than at the fringing site. Total estimated above-ground net production was 2458 g m⁻² year⁻¹ at the riverine site and 1607 g m⁻² year⁻¹ at the fringing site.     

Relaxase DNA Binding and Cleavage Are Two Distinguishable Steps in Conjugative DNA Processing That Involve Different Sequence Elements of the nic Site

TrwC, the relaxase of plasmid R388, catalyzes a series of concerted DNA cleavage and strand transfer reactions on a specific site (nic) of its origin of transfer (oriT). nic contains the cleavage site and an adjacent inverted repeat (IR₂). Mutation analysis in the nic region indicated that recognition of the IR₂ proximal arm and the nucleotides located between IR₂ and the cleavage site were essential for supercoiled DNA processing, as judged either by in vitro nic cleavage or by mobilization of a plasmid containing oriT. Formation of the IR₂ cruciform and recognition of the distal IR₂ arm and loop were not necessary for these reactions to take place. On the other hand, IR₂ was not involved in TrwC single-stranded DNA processing in vitro. For single-stranded DNA nic cleavage, TrwC recognized a sequence embracing six nucleotides upstream of the cleavage site and two nucleotides downstream. This suggests that TrwC DNA binding and cleavage are two distinguishable steps in conjugative DNA processing and that different sequence elements are recognized by TrwC in each step. IR₂-proximal arm recognition was crucial for the initial supercoiled DNA binding. Subsequent recognition of the adjacent single-stranded DNA binding site was required to position the cleavage site in the active center of the protein so that the nic cleavage reaction could take place.     

Use of a transposon-encoded site-specific resolution system for construction of large and defined deletion mutations in bacterial chromosome

A class II transposon, Tn1722, encodes a site-specific resolution system, in which the resolvase (TnpR) efficiently catalyzes intramolecular recombination between the two directly oriented copies of the resolution site (res), leading to precise excision of the intervening DNA region. This property was exploited to develop the general strategies to introduce the large and defined deletion mutations into the bacterial chromosome. The Tn1722 res site was inserted into the plasmid carrying a cloned chromosomal fragment, and the resulting plasmid was integrated into a Tn1722-containing target chromosome by single crossover-mediated homologous recombination. The plasmid integrant carrying the two copies of the res site in the same orientation could efficiently excise the chromosomal region locating between the two res sites by means of the site-specific resolution system. Such site-specific deletion could be also detected by appropriate integration of the res–tnpR-containing plasmid into the chromosome in which another copy of the res site had been inserted through allelic exchange. This latter strategy was further modified to isolate the deletion mutations that were free of the resistance markers used for introduction of the res site and the res–tnpR block into the target chromosome. The deletion systems were applied to analyze the 103-kb pvd region of Pseudomonas aeruginosa PAO carrying most of the pyoverdin biosynthetic genes. Successful isolation of the mutation lacking more than a 100-kb fragment in the pvd region indicated that this region did not carry any essential genes.     

Repetitive,Marker-Free,Site-Specific Integration as a Novel Tool for Multiple Chromosomal Integration of DNA

We present a tool for repetitive, marker-free, site-specific integration in Lactococcus lactis, in which a nonreplicating plasmid vector (pKV6) carrying a phage attachment site (attP) can be integrated into a bacterial attachment site (attB). The novelty of the tool described here is the inclusion of a minimal bacterial attachment site (attB_min), two mutated loxP sequences (lox66 and lox71) allowing for removal of undesirable vector elements (antibiotic resistance marker), and a counterselection marker (oroP) for selection of loxP recombination on the pKV6 vector. When transformed into L. lactis expressing the phage TP901-1 integrase, pKV6 integrates with high frequency into the chromosome, where it is flanked by attL and attR hybrid attachment sites. After expression of Cre recombinase from a plasmid that is not able to replicate in L. lactis, loxP recombinants can be selected for by using 5-fluoroorotic acid. The introduced attB_min site can subsequently be used for a second round of integration. To examine if attP recombination was specific to the attB site, integration was performed in strains containing the attB, attL, and attR sites or the attL and attR sites only. Only attP-attB recombination was observed when all three sites were present. In the absence of the attB site, a low frequency of attP-attL recombination was observed. To demonstrate the functionality of the system, the xylose utilization genes (xylABR and xylT) from L. lactis strain KF147 were integrated into the chromosome of L. lactis strain MG1363 in two steps.     

Dating and dendroprovenancing of the timbers used in Yenikapı historical jetty (İstanbul,Turkey)

In 2016, the Directorate of İstanbul Archaeology Museums unearthed an extensive jetty within the eastern portion of the Byzantine harbor excavated at Yenikapı, İstanbul. The purpose of the paper is to present the results obtained from the dating and dendroprovenancing of the wooden timbers from this historical jetty. A total of 145 oak and fir samples were collected for dating. The cutting dates of the oak timbers were determined to be from AD 1762-1763, which has also been confirmed by archaeological documents. The best statistical values (Gleichläufigkeit value 76%, TV_BP 10.0 and CDI 82) were obtained using the oak chronology for Vezneciler from the Asian side of the Bosporus, which represents construction phases dating to AD 1762-1763. The highest statistical matches for the oak tree-ring series from both Yenikapı and Vezneciler were obtained using reference chronologies from northern Greece and Kosovo. Three site chronologies from the forests of Bolu, Karabük and Kastamonu were used to date the fir samples, and the cutting date was determined to be AD 1906. The best statistical results were obtained from the site chronology for Kastamonu (Gleichläufigkeit value 72%, TV_BP 10.3 and CDI 79). Due to the significant correlation with this site chronology, the origin of the fir samples may be from the forests of Kastamonu, which is the nearest fir forest along the Black Sea. Because roads and railways were not common during this period, the fir timbers may have been transported via the Black Sea to Yenikapı located near the Marmara Coast. We can conclude from this evidence that construction near the Byzantine harbor continued to utilize imported timbers into the Ottoman period.     

Cloning and nucleotide sequence of the urea amidolyase gene from Candida utilis

Urea amidolyase (EC 3.5.1.45) is an important multi-functional enzyme for the degradation of urea. The urea amidolyase gene from Candida utilis CA(u)-37 (DUR1,2^c) was cloned by plaque hybridization, and the nucleotide sequences of DUR1, 2^c and its flanking regions were determined. DUR1, 2^c was found to be composed of 5,490 base pairs and 1,830 amino acid residues. Using Edman degradation of the purified enzyme, it was revealed that the amino-terminal residue (methionine) was processed for maturation. A TATA-box like sequence was found 112 bases upstream from the translation start site (ATG). The site of the poly (A) tail was found 54 bases downstream from the translation stop site (TGA), since cDNA of DUR1, 2^c was synthesized from mRNA and sequenced. The nucleotide sequences of the urea amidolyase gene from Saccharomyces cerevisiae and DUR1, 2^c were very similar to each other (65.3%), as were the deduced amino acid sequences (67.2%). The molecular weight of DUR1, 2^c was calculated to be 200,700. This value corresponded to the result obtained from SDS-polyacrylamide gel electrophoresis of the purified enzyme. The enzyme functions in a dimeric form. Three important regions were found in the amino acid sequence of urea amidolyase through the homology search. It was predicted that each region was equivalent to the active site of allophanate hydrolase, that of urea carboxylase, and the biotin-binding site. This was verified by deletion analysis of the DUR1, 2^c gene in S. cerevisiae. The function of the upstream region of the C. utilis gene is also discussed.